: The AMEDEO Literature Guide

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Articles published in PLoS One
Retrieve available abstracts of 591 articles:
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Single Articles

January 2022

ARANA C, Liang C, Brock M, Zhang B, et al
A short plus long-amplicon based sequencing approach improves genomic coverage and variant detection in the SARS-CoV-2 genome.
PLoS One. 2022;17:e0261014.
PubMed Abstract available

HUANG K, Wang C, Vagts C, Raguveer V, et al
Long non-coding RNAs (lncRNAs) NEAT1 and MALAT1 are differentially expressed in severe COVID-19 patients: An integrated single-cell analysis.
PLoS One. 2022;17:e0261242.
PubMed Abstract available

MIRANDA GHN, Alencar de Oliveira Lima L, Bittencourt LO, Dos Santos SM, et al
Effects of long-term fluoride exposure are associated with oxidative biochemistry impairment and global proteomic modulation, but not genotoxicity, in parotid glands of mice.
PLoS One. 2022;17:e0261252.
PubMed Abstract available

DILMAGHANI S, Brust MR, Ribeiro CHC, Kieffer E, et al
From communities to protein complexes: A local community detection algorithm on PPI networks.
PLoS One. 2022;17:e0260484.
PubMed Abstract available

PIERRE N, Wamalwa LN, Muiru WM, Simon B, et al
Genetic diversity of local and introduced cassava germplasm in Burundi using DArTseq molecular analyses.
PLoS One. 2022;17:e0256002.
PubMed Abstract available

HAMMOND J, Klapwijk JE, Riedijk S, Lou S, et al
Assessing women's preferences towards tests that may reveal uncertain results from prenatal genomic testing: Development of attributes for a discrete choice experiment, using a mixed-methods design.
PLoS One. 2022;17:e0261898.
PubMed Abstract available

IGATA T, Tanaka H, Etoh K, Hong S, et al
Loss of the transcription repressor ZHX3 induces senescence-associated gene expression and mitochondrial-nucleolar activation.
PLoS One. 2022;17:e0262488.
PubMed Abstract available

COELHO DE SOUSA I, Nascimento M, de Castro Sant'anna I, Teixeira Caixeta E, et al
Marker effects and heritability estimates using additive-dominance genomic architectures via artificial neural networks in Coffea canephora.
PLoS One. 2022;17:e0262055.
PubMed Abstract available

EL MOUZAN M, Assiri A, Al Sarkhy A, Alasmi M, et al
Viral dysbiosis in children with new-onset celiac disease.
PLoS One. 2022;17:e0262108.
PubMed Abstract available

ELBEHIRY A, Aldubaib M, Al Rugaie O, Marzouk E, et al
Proteomics-based screening and antibiotic resistance assessment of clinical and sub-clinical Brucella species: An evolution of brucellosis infection control.
PLoS One. 2022;17:e0262551.
PubMed Abstract available

KAPINOS A, Aghamalian P, Capehart E, Alag A, et al
Novel Cluster AZ Arthrobacter phages Powerpuff, Lego, and YesChef exhibit close functional relationships with Microbacterium phages.
PLoS One. 2022;17:e0262556.
PubMed Abstract available

BENNETT NE, Mirabal Torres SE, Gray PB
Exploratory content analysis of direct-to-consumer pet genomics: What is being marketed and what are consumers saying?
PLoS One. 2022;17:e0261694.
PubMed Abstract available

KIM SS, Kycia I, Karski M, Ma RK, et al
DNAJB1-PRKACA in HEK293T cells induces LINC00473 overexpression that depends on PKA signaling.
PLoS One. 2022;17:e0263829.
PubMed Abstract available

PADMANABHAN H, Hassan NT, Wong SW, Lee YQ, et al
Psychosocial outcome and health behaviour intent of breast cancer patients with BRCA1/2 and PALB2 pathogenic variants unselected by a priori risk.
PLoS One. 2022;17:e0263675.
PubMed Abstract available

CONTE F, Sibilio P, Grimaldi AM, Salvatore M, et al
In silico recognition of a prognostic signature in basal-like breast cancer patients.
PLoS One. 2022;17:e0264024.
PubMed Abstract available

KARADZOVSKA-KOTEVSKA M, Brunnstrom H, Kosieradzki J, Ek L, et al
Feasibility of EBUS-TBNA for histopathological and molecular diagnostics of NSCLC-A retrospective single-center experience.
PLoS One. 2022;17:e0263342.
PubMed Abstract available

BORBA RS, Hoover SE, Currie RW, Giovenazzo P, et al
Phenomic analysis of the honey bee pathogen-web and its dynamics on colony productivity, health and social immunity behaviors.
PLoS One. 2022;17:e0263273.
PubMed Abstract available

WARD SJ, McMahan CD, Khakurel B, Wright AM, et al
Genomic data support the taxonomic validity of Middle American livebearers Poeciliopsis gracilis and Poeciliopsis pleurospilus (Cyprinodontiformes: Poeciliidae).
PLoS One. 2022;17:e0262687.
PubMed Abstract available

VANDENBON A
Evaluation of critical data processing steps for reliable prediction of gene co-expression from large collections of RNA-seq data.
PLoS One. 2022;17:e0263344.
PubMed Abstract available

GOLJAN E, Abouelhoda M, ElKalioby MM, Jabaan A, et al
Identification of pharmacogenetic variants from large scale next generation sequencing data in the Saudi population.
PLoS One. 2022;17:e0263137.
PubMed Abstract available

SHAHDADI A, von Wyschetzki K, Liu HC, Chu KH, et al
Molecular phylogeography reveals multiple Pleistocene divergence events in estuarine crabs from the tropical West Pacific.
PLoS One. 2022;17:e0262122.
PubMed Abstract available

PECANKOVA K, Pecherkova P, Gasova Z, Sovova Z, et al
Proteome changes of plasma-derived extracellular vesicles in patients with myelodysplastic syndrome.
PLoS One. 2022;17:e0262484.
PubMed Abstract available

MILLER JK, Elenberg K, Dubrawski A
Forecasting emergence of COVID-19 variants of concern.
PLoS One. 2022;17:e0264198.
PubMed Abstract available

WANKAEW N, Chariyavilaskul P, Chamnanphon M, Assawapitaksakul A, et al
Genotypic and phenotypic landscapes of 51 pharmacogenes derived from whole-genome sequencing in a Thai population.
PLoS One. 2022;17:e0263621.
PubMed Abstract available

CAIRO A, Iorio MV, Spena S, Tagliabue E, et al
Worldwide SARS-CoV-2 haplotype distribution in early pandemic.
PLoS One. 2022;17:e0263705.
PubMed Abstract available

BISCHOF EA, Schluter N, Lehmann J
Geometric morphometric analysis of morphologic disparity, intraspecific variation and ontogenetic allometry of beyrichitine ammonoids.
PLoS One. 2022;17:e0263524.
PubMed Abstract available

JESKE M, Vasquez E, Fullerton SM, Saperstein A, et al
Beyond inclusion: Enacting team equity in precision medicine research.
PLoS One. 2022;17:e0263750.
PubMed Abstract available

HONG S, Park KH, Lee YE, Lee JE, et al
Antibody microarray analysis of amniotic fluid proteomes in women with cervical insufficiency and short cervix, and their association with pregnancy latency length.
PLoS One. 2022;17:e0263586.
PubMed Abstract available

WU Y, Zhu Y, Xie N, Wang H, et al
A network pharmacology approach to explore active compounds and pharmacological mechanisms of a patented Chinese herbal medicine in the treatment of endometriosis.
PLoS One. 2022;17:e0263614.
PubMed Abstract available

CONRAD MS, Gardner ML, Miguel C, Freitas MA, et al
Proteomic analysis of the umbilical cord in fetal growth restriction and preeclampsia.
PLoS One. 2022;17:e0262041.
PubMed Abstract available

GARDINER LJ, Carrieri AP, Bingham K, Macluskie G, et al
Combining explainable machine learning, demographic and multi-omic data to inform precision medicine strategies for inflammatory bowel disease.
PLoS One. 2022;17:e0263248.
PubMed Abstract available

HARTMANN K, Seweryn M, Sadee W
Interpreting coronary artery disease GWAS results: A functional genomics approach assessing biological significance.
PLoS One. 2022;17:e0244904.
PubMed Abstract available

CHEN Y, Kaplan Lease N, Gin JW, Ogorzalek TL, et al
Modular automated bottom-up proteomic sample preparation for high-throughput applications.
PLoS One. 2022;17:e0264467.
PubMed Abstract available

PIE MR, Caron FS
Geographical range overlap networks and the macroecology of species co-occurrence.
PLoS One. 2022;17:e0266275.
PubMed Abstract available

LI J, Xu H, McIndoe RA
A novel network based linear model for prioritization of synergistic drug combinations.
PLoS One. 2022;17:e0266382.
PubMed Abstract available

PFENNINGER M, Doria HB, Nickel J, Thielsch A, et al
Spontaneous rate of clonal single nucleotide mutations in Daphnia galeata.
PLoS One. 2022;17:e0265632.
PubMed Abstract available

WEISS L, Gaelings L, Reiner T, Mergner J, et al
Posttranslational modification of the RHO of plants protein RACB by phosphorylation and cross-kingdom conserved ubiquitination.
PLoS One. 2022;17:e0258924.
PubMed Abstract available

SHU J, Ma X, Ma H, Huang Q, et al
Transcriptomic, proteomic, metabolomic, and functional genomic approaches of Brassica napus L. during salt stress.
PLoS One. 2022;17:e0262587.
PubMed Abstract available

SUNDERHAUS A, Imran R, Enoh E, Adedeji A, et al
Comparative expression of soluble, active human kinases in specialized bacterial strains.
PLoS One. 2022;17:e0267226.
PubMed Abstract available

AKBARI ROKN ABADI S, Mohammadi A, Koohi S
WalkIm: Compact image-based encoding for high-performance classification of biological sequences using simple tuning-free CNNs.
PLoS One. 2022;17:e0267106.
PubMed Abstract available

LYALINA S, Stepanauskas R, Wu F, Sanjabi S, et al
Single cell genome sequencing of laboratory mouse microbiota improves taxonomic and functional resolution of this model microbial community.
PLoS One. 2022;17:e0261795.
PubMed Abstract available

MUSHTAQ S, Shafiq M, Ashraf T, Haider MS, et al
Enumeration of citrus endophytic bacterial communities based on illumine metagenomics technique.
PLoS One. 2022;17:e0263144.
PubMed Abstract available

MILBURY CA, Creeden J, Yip WK, Smith DL, et al
Clinical and analytical validation of FoundationOne(R)CDx, a comprehensive genomic profiling assay for solid tumors.
PLoS One. 2022;17:e0264138.
PubMed Abstract available

CASSELBRANT A, Fedorowski A, Frantz S, Engstrom G, et al
Common physiologic and proteomic biomarkers in pulmonary and coronary artery disease.
PLoS One. 2022;17:e0264376.
PubMed Abstract available

MORADI S, Kamal A, Aboulkheyr Es H, Farhadi F, et al
Pan-cancer analysis of microRNA expression profiles highlights microRNAs enriched in normal body cells as effective suppressors of multiple tumor types: A study based on TCGA database.
PLoS One. 2022;17:e0267291.
PubMed Abstract available

DUTTMANN C, Flores B, Sheleby-Elias J, Castillo G, et al
Africanized honeybee population (Apis mellifera L.) in Nicaragua: Forewing length and mitotype lineages.
PLoS One. 2022;17:e0267600.
PubMed Abstract available

LIPMAN D, Safo SE, Chekouo T
Multi-omic analysis reveals enriched pathways associated with COVID-19 and COVID-19 severity.
PLoS One. 2022;17:e0267047.
PubMed Abstract available

NOURANI L, Abouie Mehrizi A, Zakeri S, Djadid ND, et al
Untangling population structure and genetic diversity of reticulocyte binding protein 2b (PvRBP2b) erythrocytic stage vaccine candidate in worldwide Plasmodium vivax isolates.
PLoS One. 2022;17:e0266067.
PubMed Abstract available

CAPPA EP, Klutsch JG, Sebastian-Azcona J, Ratcliffe B, et al
Integrating genomic information and productivity and climate-adaptability traits into a regional white spruce breeding program.
PLoS One. 2022;17:e0264549.
PubMed Abstract available

ZHOU Z, Tang J, Cao Q, Li Z, et al
Differential response of physiology and metabolic response to drought stress in different sweetpotato cultivars.
PLoS One. 2022;17:e0264847.
PubMed Abstract available

MUKHOPADHYAY S, Saha S, Chakraborty S, Prasad P, et al
Differential colitis susceptibility of Th1- and Th2-biased mice: A multi-omics approach.
PLoS One. 2022;17:e0264400.
PubMed Abstract available

MAGHRADZE N, Jugheli L, Borrell S, Tukvadze N, et al
Developing customized stepwise MIRU-VNTR typing for tuberculosis surveillance in Georgia.
PLoS One. 2022;17:e0264472.
PubMed Abstract available

LI S, Counter CM
Non-canonical genomic driver mutations of urethane carcinogenesis.
PLoS One. 2022;17:e0267147.
PubMed Abstract available

DIEYE Y, Hull DM, Wane AA, Harden L, et al
Genomics of human and chicken Salmonella isolates in Senegal: Broilers as a source of antimicrobial resistance and potentially invasive nontyphoidal salmonellosis infections.
PLoS One. 2022;17:e0266025.
PubMed Abstract available

ANTHONYSAMY WJB, Dreslik MJ, Baker SJ, Davis MA, et al
Limited gene flow and pronounced population genetic structure of Eastern Massasauga (Sistrurus catenatus) in a Midwestern prairie remnant.
PLoS One. 2022;17:e0265666.
PubMed Abstract available

YASUDA T, Tahara K, Sawada T
Detection of salivary citrullinated cytokeratin 13 in healthy individuals and patients with rheumatoid arthritis by proteomics analysis.
PLoS One. 2022;17:e0265687.
PubMed Abstract available

DIEKI R, Nsi Emvo E, Akue JP
Comparison of six methods for Loa loa genomic DNA extraction.
PLoS One. 2022;17:e0265582.
PubMed Abstract available

GUO YH, Halasan LC, Wang HY, Lin HC, et al
High migratory propensity constitutes a single stock of an exploited cutlassfish species in the Northwest Pacific: A microsatellite approach.
PLoS One. 2022;17:e0265548.
PubMed Abstract available

DAVIK J, Roen D, Lysoe E, Buti M, et al
A chromosome-level genome sequence assembly of the red raspberry (Rubus idaeus L.).
PLoS One. 2022;17:e0265096.
PubMed Abstract available

JI G, Chang H, Yang M, Chen H, et al
The mitochondrial proteomic changes of rat hippocampus induced by 28-day simulated microgravity.
PLoS One. 2022;17:e0265108.
PubMed Abstract available

HARFORD TJ, Rezaee F, Dye BR, Fan J, et al
RSV-induced changes in a 3-dimensional organoid model of human fetal lungs.
PLoS One. 2022;17:e0265094.
PubMed Abstract available

CARLAND M, Pedersen H, Bose M, Novkovic B, et al
EZTraits: A programmable tool to evaluate multi-site deterministic traits.
PLoS One. 2022;17:e0259327.
PubMed Abstract available

KHAN MN, Ahmed I, Ud Din I, Noureldeen A, et al
Proteomic insight into soybean response to flooding stress reveals changes in energy metabolism and cell wall modifications.
PLoS One. 2022;17:e0264453.
PubMed Abstract available

LOVE TM, Anaya DA, Prime MS, Ardolino L, et al
Development and validation of ACTE-MTB: A tool to systematically assess the maturity of molecular tumor boards.
PLoS One. 2022;17:e0268477.
PubMed Abstract available

HOLM M, Saraswat M, Joenvaara S, Seppo A, et al
Quantitative glycoproteomics of human milk and association with atopic disease.
PLoS One. 2022;17:e0267967.
PubMed Abstract available

DELIHAS N
An ancestral genomic sequence that serves as a nucleation site for de novo gene birth.
PLoS One. 2022;17:e0267864.
PubMed Abstract available

VOLYNKINA A, Lisitskaya Y, Kolosov A, Shaposhnikova L, et al
Molecular epidemiology of Crimean-Congo hemorrhagic fever virus in Russia.
PLoS One. 2022;17:e0266177.
PubMed Abstract available

VENTRESCA MILLER AR, Wilkin S, Hendy J, Turbat T, et al
The spread of herds and horses into the Altai: How livestock and dairying drove social complexity in Mongolia.
PLoS One. 2022;17:e0265775.
PubMed Abstract available

LANG J
MAECI: A pipeline for generating consensus sequence with nanopore sequencing long-read assembly and error correction.
PLoS One. 2022;17:e0267066.
PubMed Abstract available

GENISH I, Gabay B, Ruban A, Goldshmit Y, et al
Electroporation-based proteome sampling ex vivo enables the detection of brain melanoma protein signatures in a location proximate to visible tumor margins.
PLoS One. 2022;17:e0265866.
PubMed Abstract available

ARORA D, Park JE, Lim D, Cho IC, et al
Multi-omics approaches for comprehensive analysis and understanding of the immune response in the miniature pig breed.
PLoS One. 2022;17:e0263035.
PubMed Abstract available

COLLER HA, Beggs S, Andrews S, Maloy J, et al
Bruins-in-Genomics: Evaluation of the impact of a UCLA undergraduate summer program in computational biology on participating students.
PLoS One. 2022;17:e0268861.
PubMed Abstract available

PAUDEL D, Kuramitsu Y, Uehara O, Morikawa T, et al
Proteomic and microbiota analyses of the oral cavity during psychological stress.
PLoS One. 2022;17:e0268155.
PubMed Abstract available

HUANG RDL, Nguyen XT, Peloso GM, Trinder M, et al
Genome-wide and phenome-wide analysis of ideal cardiovascular health in the VA Million Veteran Program.
PLoS One. 2022;17:e0267900.
PubMed Abstract available

ANDREEV VP, Helmuth ME, Liu G, Smith AR, et al
Subtyping of common complex diseases and disorders by integrating heterogeneous data. Identifying clusters among women with lower urinary tract symptoms in the LURN study.
PLoS One. 2022;17:e0268547.
PubMed Abstract available

BLAGEC K, Swen JJ, Koopmann R, Cheung KC, et al
Pharmacogenomics decision support in the U-PGx project: Results and advice from clinical implementation across seven European countries.
PLoS One. 2022;17:e0268534.
PubMed Abstract available

AUTERI GG, Marchan-Rivadeneira MR, Olson DH, Knowles LL, et al
Landscape connectivity among coastal giant salamander (Dicamptodon tenebrosus) populations shows no association with land use, fire frequency, or river drainage but exhibits genetic signatures of potential conservation concern.
PLoS One. 2022;17:e0268882.
PubMed Abstract available

FROMMLET F, Szulc P, Konig F, Bogdan M, et al
Selecting predictive biomarkers from genomic data.
PLoS One. 2022;17:e0269369.
PubMed Abstract available

MARBUN VMG, Erlina L, Lalisang TJM
Genomic landscape of pathogenic mutation of APC, KRAS, TP53, PIK3CA, and MLH1 in Indonesian colorectal cancer.
PLoS One. 2022;17:e0267090.
PubMed Abstract available

ZHANG X, Takeuchi T, Takeda A, Mochizuki H, et al
Comparison of serum and plasma as a source of blood extracellular vesicles: Increased levels of platelet-derived particles in serum extracellular vesicle fractions alter content profiles from plasma extracellular vesicle fractions.
PLoS One. 2022;17:e0270634.
PubMed Abstract available

CHEN M, Yang Z, Gan H, Wang Y, et al
Investigation into potential mechanisms of metabolic syndrome by integrative analysis of metabolomics and proteomics.
PLoS One. 2022;17:e0270593.
PubMed Abstract available

MATEUS ID, Auxier B, Ndiaye MMS, Cruz J, et al
Reciprocal recombination genomic signatures in the symbiotic arbuscular mycorrhizal fungi Rhizophagus irregularis.
PLoS One. 2022;17:e0270481.
PubMed Abstract available

ALBRECHT S, Andreani T, Andrade-Navarro MA, Fontaine JF, et al
Single-cell specific and interpretable machine learning models for sparse scChIP-seq data imputation.
PLoS One. 2022;17:e0270043.
PubMed Abstract available

ROSE J, Basisty N, Zee T, Wehrfritz C, et al
Comprehensive proteomic quantification of bladder stone progression in a cystinuric mouse model using data-independent acquisitions.
PLoS One. 2022;17:e0250137.
PubMed Abstract available

HUBBS NW, Hurt CR, Niedzwiecki J, Leckie B, et al
Conservation genomics of urban populations of Streamside Salamander (Ambystoma barbouri).
PLoS One. 2022;17:e0260178.
PubMed Abstract available

VICCO A, Caccuri F, Messali S, Vitiello A, et al
Genomic surveillance of SARS-CoV-2 in patients presenting neurological manifestations.
PLoS One. 2022;17:e0270024.
PubMed Abstract available

SHIMIZU M, Mihara T, Ohara J, Inoue K, et al
Relationship between mortality and molecular epidemiology of methicillin-resistant Staphylococcus aureus bacteremia.
PLoS One. 2022;17:e0271115.
PubMed Abstract available

WILDING-MCBRIDE D, Dagley LF, Spall SK, Infusini G, et al
Simplifying MS1 and MS2 spectra to achieve lower mass error, more dynamic range, and higher peptide identification confidence on the Bruker timsTOF Pro.
PLoS One. 2022;17:e0271025.
PubMed Abstract available

LEE JE, Dan K, Kim HJ, Kim YM, et al
Plasma proteomic analysis to identify potential biomarkers of histologic chorioamnionitis in women with preterm premature rupture of membranes.
PLoS One. 2022;17:e0270884.
PubMed Abstract available

SHIRAI K, Hikita H, Sakane S, Narumi R, et al
Serum amyloid P component and pro-platelet basic protein in extracellular vesicles or serum are novel markers of liver fibrosis in chronic hepatitis C patients.
PLoS One. 2022;17:e0271020.
PubMed Abstract available

YAO R, Guo R, Liu Y, Kou Z, et al
Identification and phylogenetic analysis of the genus Syringa based on chloroplast genomic DNA barcoding.
PLoS One. 2022;17:e0271633.
PubMed Abstract available

BHARDWAJ V, Dela Cruz M, Subramanyam D, Kumar R, et al
Exercise-induced myokines downregulates the ACE2 level in bronchial epithelial cells: Implications for SARS-CoV-2 prevention.
PLoS One. 2022;17:e0271303.
PubMed Abstract available

DARADICS N, Horvath G, Tretter L, Paal A, et al
The effect of Cyclophilin D depletion on liver regeneration following associating liver partition and portal vein ligation for staged hepatectomy.
PLoS One. 2022;17:e0271606.
PubMed Abstract available

SMITH RD, Puzey JR, Conradi Smith GD
Population genetics of transposable element load: A mechanistic account of observed overdispersion.
PLoS One. 2022;17:e0270839.
PubMed Abstract available

CHENG JE, Su P, Zhang ZH, Zheng LM, et al
Metagenomic analysis of the dynamical conversion of photosynthetic bacterial communities in different crop fields over different growth periods.
PLoS One. 2022;17:e0262517.
PubMed Abstract available

BARIK SR, Pandit E, Sanghamitra P, Mohanty SP, et al
Unraveling the genomic regions controlling the seed vigour index, root growth parameters and germination per cent in rice.
PLoS One. 2022;17:e0267303.
PubMed Abstract available

MORAO LG, Manzine LR, Clementino LOD, Wrenger C, et al
A scalable screening of E. coli strains for recombinant protein expression.
PLoS One. 2022;17:e0271403.
PubMed Abstract available

WONG S, Ehrhart EJ, Stewart S, Zismann V, et al
Genomic landscapes of canine splenic angiosarcoma (hemangiosarcoma) contain extensive heterogeneity within and between patients.
PLoS One. 2022;17:e0264986.
PubMed Abstract available

SHARIF N, Alzahrani KJ, Ahmed SN, Khan A, et al
Genomic surveillance, evolution and global transmission of SARS-CoV-2 during 2019-2022.
PLoS One. 2022;17:e0271074.
PubMed Abstract available

LEE SB, Shin JY, Kwon NJ, Kim C, et al
ClinPharmSeq: A targeted sequencing panel for clinical pharmacogenetics implementation.
PLoS One. 2022;17:e0272129.
PubMed Abstract available

ADEBAYO IA, Habib MAH, Sarmiento ME, Acosta A, et al
Proteomic analysis of Malaysian Horseshoe crab (Tachypleus gigas) hemocytes gives insights into its innate immunity host defence system and other biological processes.
PLoS One. 2022;17:e0272799.
PubMed Abstract available

YAMANO R, Yu J, Jiang C, Harjuno Condro Haditomo A, et al
Taxonomic revision of the genus Amphritea supported by genomic and in silico chemotaxonomic analyses, and the proposal of Aliamphritea gen. nov.
PLoS One. 2022;17:e0271174.
PubMed Abstract available

NIKITUSHKIN V, Shleeva M, Loginov D, Dycka F F, et al
Shotgun proteomic profiling of dormant, 'non-culturable' Mycobacterium tuberculosis.
PLoS One. 2022;17:e0269847.
PubMed Abstract available

OKENDO J, Musanabaganwa C, Mwangi P, Nyaga M, et al
SARS-CoV-2-positive patients display considerable differences in proteome diversity in urine, nasopharyngeal, gargle solution and bronchoalveolar lavage fluid samples.
PLoS One. 2022;17:e0271870.
PubMed Abstract available

LI XN, Adnan A, Hadi S, Al-Qahtani WS, et al
Genetic characterization of the highlander Tibetan population from Qinghai-Tibet Plateau revealed by X chromosomal STRs.
PLoS One. 2022;17:e0271769.
PubMed Abstract available

MUKHERJEE M, Eby M, Wang S, Lara-Millan A, et al
Medicalizing risk: How experts and consumers manage uncertainty in genetic health testing.
PLoS One. 2022;17:e0270430.
PubMed Abstract available

MENDES M, Jonnalagadda M, Ozarkar S, Lima Torres FC, et al
Identifying signatures of natural selection in Indian populations.
PLoS One. 2022;17:e0271767.
PubMed Abstract available

PAZ SEPULVEDA PB, Mayordomo AC, Sala C, Sosa EJ, et al
Human Y chromosome sequences from Q Haplogroup reveal a South American settlement pre-18,000 years ago and a profound genomic impact during the Younger Dryas.
PLoS One. 2022;17:e0271971.
PubMed Abstract available

BANOS G, Talenti A, Chatziplis D, Sanchez-Molano E, et al
Genomic analysis of the rare British Lop pig and identification of distinctive genomic markers.
PLoS One. 2022;17:e0271053.
PubMed Abstract available

ZHANG J, Wu M, Ma Z, Zhang Y, et al
Species-specific identification of donkey-hide gelatin and its adulterants using marker peptides.
PLoS One. 2022;17:e0273021.
PubMed Abstract available

GAO J, Pan T, Chen X, Wei Q, et al
Proteomic analysis of Masson pine with high resistance to pine wood nematodes.
PLoS One. 2022;17:e0273010.
PubMed Abstract available

ILLANES G, Fariello MI, Spangenberg L, Mordecki E, et al
Testing the existence of an unadmixed ancestor from a specific population t generations ago.
PLoS One. 2022;17:e0271097.
PubMed Abstract available

MCKINDLES KM, McKay RM, Bullerjahn GS
Genomic comparison of Planktothrix agardhii isolates from a Lake Erie embayment.
PLoS One. 2022;17:e0273454.
PubMed Abstract available

TANO FT, Barbosa GR, de Rezende E, Souza ROO, et al
Proteome and morphological analysis show unexpected differences between promastigotes of Leishmania amazonensis PH8 and LV79 strains.
PLoS One. 2022;17:e0271492.
PubMed Abstract available

NANTONGO JS, Odoi JB, Agaba H, Gwali S, et al
SilicoDArT and SNP markers for genetic diversity and population structure analysis of Trema orientalis; a fodder species.
PLoS One. 2022;17:e0267464.
PubMed Abstract available

LAMB IM, Rios KT, Shukla A, Ahiya AI, et al
Mitochondrially targeted proximity biotinylation and proteomic analysis in Plasmodium falciparum.
PLoS One. 2022;17:e0273357.
PubMed Abstract available

SO B, Ji LL, Imdad S, Kang C, et al
Proteomic analysis of the effect of high-fat-diet and voluntary physical activity on mouse liver.
PLoS One. 2022;17:e0273049.
PubMed Abstract available

YU M
Computational analysis on two putative mitochondrial protein-coding genes from the Emydura subglobosa genome: A functional annotation approach.
PLoS One. 2022;17:e0268031.
PubMed Abstract available

DEMERY-POULOS C, Chambers JM
Identification, conservation, and expression of tiered pharmacogenes in zebrafish.
PLoS One. 2022;17:e0273582.
PubMed Abstract available

DEHORITY W, Morley VJ, Domman DB, Daly SM, et al
Genomic characterization of Staphylococcus aureus isolates causing osteoarticular infections in otherwise healthy children.
PLoS One. 2022;17:e0272425.
PubMed Abstract available

OULTON T, Obiero J, Rodriguez I, Ssewanyana I, et al
Plasmodium falciparum serology: A comparison of two protein production methods for analysis of antibody responses by protein microarray.
PLoS One. 2022;17:e0273106.
PubMed Abstract available

OCHIENG J, Kwagala B, Barugahare J, Mwaka E, et al
Perspectives and experiences of researchers regarding feedback of incidental genomic research findings: A qualitative study.
PLoS One. 2022;17:e0273657.
PubMed Abstract available

ZHANG M, Tian J, Li H, Cang M, et al
The comparative genomic analysis provides insights into the phylogeny and virulence of tick-borne encephalitis virus vaccine strain Senzhang.
PLoS One. 2022;17:e0273565.
PubMed Abstract available

PRITCHARD KA JR, Jing X, Teng M, Wells C, et al
Role of endoplasmic reticulum stress in impaired neonatal lung growth and bronchopulmonary dysplasia.
PLoS One. 2022;17:e0269564.
PubMed Abstract available

ASHRAF B, Atiq N, Khan K, Wadood A, et al
Subtractive genomics profiling for potential drug targets identification against Moraxella catarrhalis.
PLoS One. 2022;17:e0273252.
PubMed Abstract available

HOLM M, Joenvaara S, Saraswat M, Tohmola T, et al
Quantitative bile and serum proteomics for the screening and differential diagnosis of primary sclerosing cholangitis.
PLoS One. 2022;17:e0272810.
PubMed Abstract available

STOPKA TJ, Yaghi O, Li M, Paintsil E, et al
Molecular and spatial epidemiology of HCV among people who inject drugs in Boston, Massachusetts.
PLoS One. 2022;17:e0266216.
PubMed Abstract available

LIU Y, Zhao G, Lin X, Zhang J, et al
Genomic inbreeding and runs of homozygosity analysis of indigenous cattle populations in southern China.
PLoS One. 2022;17:e0271718.
PubMed Abstract available

SETSUKO S, Sugai K, Tamaki I, Takayama K, et al
Contrasting genetic diversity between Planchonella obovata sensu lato (Sapotaceae) on old continental and young oceanic island populations in Japan.
PLoS One. 2022;17:e0273871.
PubMed Abstract available

DOERING TM, Thompson JM, Budiono BP, MacKenzie-Shalders KL, et al
The muscle proteome reflects changes in mitochondrial function, cellular stress and proteolysis after 14 days of unilateral lower limb immobilization in active young men.
PLoS One. 2022;17:e0273925.
PubMed Abstract available

HELFAND BT, Paterakos M, Wang CH, Talaty P, et al
The 17-gene Genomic Prostate Score assay as a predictor of biochemical recurrence in men with intermediate and high-risk prostate cancer.
PLoS One. 2022;17:e0273782.
PubMed Abstract available

YUAN M, Yin X, Gao B, Gu R, et al
The chloroplasts genomic analyses of four specific Caragana species.
PLoS One. 2022;17:e0272990.
PubMed Abstract available

WAGGLE KD, Griffith MP, Zhu L, Cooper VS, et al
Genomic characterization of SARS-CoV-2 from vaccine breakthrough cases in Allegheny County, Pennsylvania.
PLoS One. 2022;17:e0272954.
PubMed Abstract available

OYLER-MCCANCE SJ, Cross TB, Row JR, Schwartz MK, et al
New strategies for characterizing genetic structure in wide-ranging, continuously distributed species: A Greater Sage-grouse case study.
PLoS One. 2022;17:e0274189.
PubMed Abstract available

MEGQUIER K, Turner-Maier J, Morrill K, Li X, et al
The genomic landscape of canine osteosarcoma cell lines reveals conserved structural complexity and pathway alterations.
PLoS One. 2022;17:e0274383.
PubMed Abstract available

LIU J, Peng R, Tan Q, Li B, et al
Proteomic analysis of rat colonic mucosa following acupuncture treatment for irritable bowel syndrome with diarrhea.
PLoS One. 2022;17:e0273853.
PubMed Abstract available

AYASS MA, Cao W, Zhang J, Dai J, et al
Noninvasive nasopharyngeal proteomics of COVID-19 patient identify abnormalities related to complement and coagulation cascade and mucosal immune system.
PLoS One. 2022;17:e0274228.
PubMed Abstract available

BROWN KT, Southgate PC, Hewavitharane CA, Lal MM, et al
Saving the sea cucumbers: Using population genomic tools to inform fishery and conservation management of the Fijian sandfish Holothuria (Metriatyla) scabra.
PLoS One. 2022;17:e0274245.
PubMed Abstract available

PAPP M, Bekesi L, Farkas R, Makrai L, et al
Natural diversity of the honey bee (Apis mellifera) gut bacteriome in various climatic and seasonal states.
PLoS One. 2022;17:e0273844.
PubMed Abstract available

STULAR B, Lozic E, Belak M, Rihter J, et al
Migration of Alpine Slavs and machine learning: Space-time pattern mining of an archaeological data set.
PLoS One. 2022;17:e0274687.
PubMed Abstract available

BITTLESTON H, Hocking JS, Goller JL, Coombe J, et al
Is there a place for a molecular diagnostic test for pelvic inflammatory disease in primary care? An exploratory qualitative study.
PLoS One. 2022;17:e0274666.
PubMed Abstract available

SHARMA A, Sharma S, Kumar N, Rana RS, et al
Morpho-molecular genetic diversity and population structure analysis in garden pea (Pisum sativum L.) genotypes using simple sequence repeat markers.
PLoS One. 2022;17:e0273499.
PubMed Abstract available

KHATTAK F, Galgano S, Houdijk J
Bacterial concentration and Campylobacter spp. quantification differ when fresh or ultra-frozen samples are analysed over time using molecular biology and culture-based methods.
PLoS One. 2022;17:e0274682.
PubMed Abstract available

SWART Y, van Eeden G, Uren C, van der Spuy G, et al
GWAS in the southern African context.
PLoS One. 2022;17:e0264657.
PubMed Abstract available

TRACHOO O, Yingchoncharoen T, Ngernsritrakul T, Iemwimangsa N, et al
Genomic findings of hypertrophic and dilated cardiomyopathy characterized in a Thai clinical genetics service.
PLoS One. 2022;17:e0267770.
PubMed Abstract available

SHEPHERD LD, Miskelly CM, Bulgarella M, Tennyson AJD, et al
Genomic analyses of fairy and fulmar prions (Procellariidae: Pachyptila spp.) reveals parallel evolution of bill morphology, and multiple species.
PLoS One. 2022;17:e0275102.
PubMed Abstract available

MOHANTA TK, Mohanta YK, Avula SK, Nongbet A, et al
Virtual 2D map of cyanobacterial proteomes.
PLoS One. 2022;17:e0275148.
PubMed Abstract available

ULAHANNAN N, Cutler R, Dona-Termine R, Simoes-Pires CA, et al
Genomic insights into host and parasite interactions during intracellular infection by Toxoplasma gondii.
PLoS One. 2022;17:e0275226.
PubMed Abstract available

KIM G, Jang G, Song J, Kim D, et al
A transcriptome-wide association study of uterine fibroids to identify potential genetic markers and toxic chemicals.
PLoS One. 2022;17:e0274879.
PubMed Abstract available

TAGUCHI YH, Turki T
Projection in genomic analysis: A theoretical basis to rationalize tensor decomposition and principal component analysis as feature selection tools.
PLoS One. 2022;17:e0275472.
PubMed Abstract available

WAGNER DM, Birdsell DN, McDonough RF, Nottingham R, et al
Genomic characterization of Francisella tularensis and other diverse Francisella species from complex samples.
PLoS One. 2022;17:e0273273.
PubMed Abstract available

WESTBURY MV, De Cahsan B, Shepherd LD, Holdaway RN, et al
Genomic insights into the evolutionary relationships and demographic history of kiwi.
PLoS One. 2022;17:e0266430.
PubMed Abstract available

BEKELE FL, Bidaisee GG, Allegre M, Argout X, et al
Genome-wide association studies and genomic selection assays made in a large sample of cacao (Theobroma cacao L.) germplasm reveal significant marker-trait associations and good predictive value for improving yield potential.
PLoS One. 2022;17:e0260907.
PubMed Abstract available

CUEVA D, Bravo GA, Silveira LF
Systematics of Thraupis (Aves, Passeriformes) reveals an extensive hybrid zone between T. episcopus (Blue-gray Tanager) and T. sayaca (Sayaca Tanager).
PLoS One. 2022;17:e0270892.
PubMed Abstract available

POITRIMOL C, Thiebaut E, Daguin-Thiebaut C, Le Port AS, et al
Contrasted phylogeographic patterns of hydrothermal vent gastropods along South West Pacific: Woodlark Basin, a possible contact zone and/or stepping-stone.
PLoS One. 2022;17:e0275638.
PubMed Abstract available

TZERTZINIS G, Baker B, Benner J, Brown E, et al
Coelenterazine sulfotransferase from Renilla muelleri.
PLoS One. 2022;17:e0276315.
PubMed Abstract available

BOLOURCHI N, Fereshteh S, Noori Goodarzi N, Badmasti F, et al
Subtractive genomic analysis for computational identification of putative immunogenic targets against clinical Enterobacter cloacae complex.
PLoS One. 2022;17:e0275749.
PubMed Abstract available

SILVESTRINI S, Lugli F, Romandini M, Real C, et al
Integrating ZooMS and zooarchaeology: New data from the Uluzzian levels of Uluzzo C Rock Shelter, Roccia San Sebastiano cave and Riparo del Broion.
PLoS One. 2022;17:e0275614.
PubMed Abstract available

GONZALEZ-PRENDES R, Ginja C, Kantanen J, Ghanem N, et al
Integrative QTL mapping and selection signatures in Groningen White Headed cattle inferred from whole-genome sequences.
PLoS One. 2022;17:e0276309.
PubMed Abstract available

ZHOU X, Yao G, Zhang J, Bian J, et al
An integrated multi-omics analysis of topoisomerase family in pan-cancer: Friend or foe?
PLoS One. 2022;17:e0274546.
PubMed Abstract available

FRANCE MT, Brown SE, Rompalo AM, Brotman RM, et al
Identification of shared bacterial strains in the vaginal microbiota of related and unrelated reproductive-age mothers and daughters using genome-resolved metagenomics.
PLoS One. 2022;17:e0275908.
PubMed Abstract available

GOMEZ I, Perez-Vazquez MD, Tarrago D
Molecular epidemiology of Kaposi sarcoma virus in Spain.
PLoS One. 2022;17:e0274058.
PubMed Abstract available

GARRIDO-SANZ L, Angel Senar M, Pinol J
Drastic reduction of false positive species in samples of insects by intersecting the default output of two popular metagenomic classifiers.
PLoS One. 2022;17:e0275790.
PubMed Abstract available

SCHORK K, Turewicz M, Uszkoreit J, Rahnenfuhrer J, et al
Characterization of peptide-protein relationships in protein ambiguity groups via bipartite graphs.
PLoS One. 2022;17:e0276401.
PubMed Abstract available

YALKOVSKAYA L, Sibiryakov P, Borodin A
Phylogeography of the striped field mouse (Apodemus agrarius Pallas, 1771) in light of new data from central part of Northern Eurasia.
PLoS One. 2022;17:e0276466.
PubMed Abstract available

FERNANDES SANTOS CA, Rodrigues da Costa S, Silva Boiteux L, Grattapaglia D, et al
Genetic associations with resistance to Meloidogyne enterolobii in guava (Psidium sp.) using cross-genera SNPs and comparative genomics to Eucalyptus highlight evolutionary conservation across the Myrtaceae.
PLoS One. 2022;17:e0273959.
PubMed Abstract available

LUEYOT A, Wonganu B, Rungsardthong V, Vatanyoopaisarn S, et al
Improved jellyfish gelatin quality through ultrasound-assisted salt removal and an extraction process.
PLoS One. 2022;17:e0276080.
PubMed Abstract available

PERROT A, Horn R
Health professionals and scientists' views on genome-wide NIPT in the French public health system: Critical analysis of the ethical issues raised by prenatal genomics.
PLoS One. 2022;17:e0277010.
PubMed Abstract available

YAGLOM HD, Maurer M, Collins B, Hojnacki J, et al
One health genomic surveillance and response to a university-based outbreak of the SARS-CoV-2 Delta AY.25 lineage, Arizona, 2021.
PLoS One. 2022;17:e0272830.
PubMed Abstract available

DOTTI I, Mayorgas A, Salas A
Generation of human colon organoids from healthy and inflammatory bowel disease mucosa.
PLoS One. 2022;17:e0276195.
PubMed Abstract available

SHAW PJ, Kaewprommal P, Wongsombat C, Ngampiw C, et al
Transcriptomic complexity of the human malaria parasite Plasmodium falciparum revealed by long-read sequencing.
PLoS One. 2022;17:e0276956.
PubMed Abstract available

JUNG N, Park S, Kong T, Park H, et al
LC-MS/MS-based serum proteomics reveals a distinctive signature in a rheumatoid arthritis mouse model after treatment with mesenchymal stem cells.
PLoS One. 2022;17:e0277218.
PubMed Abstract available

NILSSON K, Skoog E, Edvinsson M, Martensson A, et al
Protein biomarker profiles in serum and CSF in 158 patients with PTLDS or persistent symptoms after presumed tick-bite exposure compared to those in patients with confirmed acute neuroborreliosis.
PLoS One. 2022;17:e0276407.
PubMed Abstract available

COSTA MF, Morales-Marroquin JA, de Araujo Batista CE, Alves-Pereira A, et al
Population genomics of the neotropical palm Copernicia prunifera (Miller) H. E. Moore: Implications for conservation.
PLoS One. 2022;17:e0276408.
PubMed Abstract available

ALTENDAHL M, Mok T, Jang C, Yeo S, et al
Severe COVID-19 in pregnancy has a distinct serum profile, including greater complement activation and dysregulation of serum lipids.
PLoS One. 2022;17:e0276766.
PubMed Abstract available

NETZER M, Baumgartner C, Baumgarten D
Predicting prediction: A systematic workflow to analyze factors affecting the classification performance in genomic biomarker discovery.
PLoS One. 2022;17:e0276607.
PubMed Abstract available

LIANG X, Cao X, Sha Q, Zhang S, et al
HCLC-FC: A novel statistical method for phenome-wide association studies.
PLoS One. 2022;17:e0276646.
PubMed Abstract available

WANG S, Wang G, Lu S, Zhang J, et al
Proteome expression profiling of red blood cells during the tumorigenesis of hepatocellular carcinoma.
PLoS One. 2022;17:e0276904.
PubMed Abstract available

DI LUCA A, Ianni A, Henry M, Martino C, et al
Label-free quantitative proteomics and stress responses in pigs-The case of short or long road transportation.
PLoS One. 2022;17:e0277950.
PubMed Abstract available

CAI J, Chen B, Li W, Xu P, et al
Transcriptome analysis reveals the regulatory mode by which NAA promotes the growth of Armillaria gallica.
PLoS One. 2022;17:e0277701.
PubMed Abstract available

OCHIENG J, Kwagala B, Barugahare J, Moller M, et al
Feedback of individual genetic and genomics research results: A qualitative study involving grassroots communities in Uganda.
PLoS One. 2022;17:e0267375.
PubMed Abstract available

CHEPP V, Baker C, Kostiha S, Smith JD, et al
The Molecular Medicine PhD program alumni perceptions of career preparedness.
PLoS One. 2022;17:e0275996.
PubMed Abstract available

FAHEY PS, Udovicic F, Cantrill DJ, Bayly MJ, et al
A box on the river: The phylogenetics and phylogeography of Eucalyptus baueriana (Eucalyptus sect. Adnataria ser. Heterophloiae).
PLoS One. 2022;17:e0276117.
PubMed Abstract available

KUNDU J, Kansal S, Rathore S, Kaundal M, et al
Evaluation of ERIC-PCR and MALDI-TOF as typing tools for multidrug resistant Klebsiella pneumoniae clinical isolates from a tertiary care center in India.
PLoS One. 2022;17:e0271652.
PubMed Abstract available

January 2021

BHOYAR RC, Jain A, Sehgal P, Divakar MK, et al
High throughput detection and genetic epidemiology of SARS-CoV-2 using COVIDSeq next-generation sequencing.
PLoS One. 2021;16:e0247115.
PubMed Abstract available

DADOUSIS C, Cecchi F, Ablondi M, Fabbri MC, et al
Keep Garfagnina alive. An integrated study on patterns of homozygosity, genomic inbreeding, admixture and breed traceability of the Italian Garfagnina goat breed.
PLoS One. 2021;16:e0232436.
PubMed Abstract available

ZHANG ML, Wang LQ, Qi Y, Wu Y, et al
Comparative genomic analysis of three geographical isolates from China reveals high genetic stability of Plutella xylostella granulovirus.
PLoS One. 2021;16:e0243143.
PubMed Abstract available

HAN M, Yan H, Yang K, Fan B, et al
Identification of biomarkers and construction of a microRNAmRNA regulatory network for clear cell renal cell carcinoma using integrated bioinformatics analysis.
PLoS One. 2021;16:e0244394.
PubMed Abstract available

MI W, Liu Z, Jin J, Dong X, et al
Comparative proteomics analysis reveals the molecular mechanism of enhanced cold tolerance through ROS scavenging in winter rapeseed (Brassica napus L.).
PLoS One. 2021;16:e0243292.
PubMed Abstract available

EPELBOIN Y, Wang L, Giai Gianetto Q, Choumet V, et al
CYP450 core involvement in multiple resistance strains of Aedes aegypti from French Guiana highlighted by proteomics, molecular and biochemical studies.
PLoS One. 2021;16:e0243992.
PubMed Abstract available

MAROSO F, Gkagkavouzis K, De Innocentiis S, Hillen J, et al
Genome-wide analysis clarifies the population genetic structure of wild gilthead sea bream (Sparus aurata).
PLoS One. 2021;16:e0236230.
PubMed Abstract available

TAMAR K, Els J, Kornilios P, Soorae P, et al
The demise of a wonder: Evolutionary history and conservation assessments of the Wonder Gecko Teratoscincus keyserlingii (Gekkota, Sphaerodactylidae) in Arabia.
PLoS One. 2021;16:e0244150.
PubMed Abstract available

MORIBE F, Nishikori M, Takashima T, Taniyama D, et al
Epigenetic suppression of SLFN11 in germinal center B-cells during B-cell development.
PLoS One. 2021;16:e0237554.
PubMed Abstract available

SCIABOLA S, Xi H, Cruz D, Cao Q, et al
PFRED: A computational platform for siRNA and antisense oligonucleotides design.
PLoS One. 2021;16:e0238753.
PubMed Abstract available

GUEVARRA RB, Magez S, Peeters E, Chung MS, et al
Comprehensive genomic analysis reveals virulence factors and antibiotic resistance genes in Pantoea agglomerans KM1, a potential opportunistic pathogen.
PLoS One. 2021;16:e0239792.
PubMed Abstract available

EGFJORD AF, Margaryan A, Fischer A, Sjogren KG, et al
Genomic Steppe ancestry in skeletons from the Neolithic Single Grave Culture in Denmark.
PLoS One. 2021;16:e0244872.
PubMed Abstract available

MACHER JN, Prazeres M, Taudien S, Jompa J, et al
Integrating morphology and metagenomics to understand taxonomic variability of Amphisorus (Foraminifera, Miliolida) from Western Australia and Indonesia.
PLoS One. 2021;16:e0244616.
PubMed Abstract available

COELHO AC, Pires R, Schutz G, Santa C, et al
Disclosing proteins in the leaves of cork oak plants associated with the immune response to Phytophthora cinnamomi inoculation in the roots: A long-term proteomics approach.
PLoS One. 2021;16:e0245148.
PubMed Abstract available

SOUTO BM, de Araujo ACB, Hamann PRV, Bastos AR, et al
Functional screening of a Caatinga goat (Capra hircus) rumen metagenomic library reveals a novel GH3 beta-xylosidase.
PLoS One. 2021;16:e0245118.
PubMed Abstract available

MAGUIRE M, Kase JA, Roberson D, Muruvanda T, et al
Precision long-read metagenomics sequencing for food safety by detection and assembly of Shiga toxin-producing Escherichia coli in irrigation water.
PLoS One. 2021;16:e0245172.
PubMed Abstract available

ELMASSRY MM, Kim S, Busby B
Predicting drug-metagenome interactions: Variation in the microbial beta-glucuronidase level in the human gut metagenomes.
PLoS One. 2021;16:e0244876.
PubMed Abstract available

MUTURI SM, Muthui LW, Njogu PM, Onguso JM, et al
Metagenomics survey unravels diversity of biogas microbiomes with potential to enhance productivity in Kenya.
PLoS One. 2021;16:e0244755.
PubMed Abstract available

MADDUPPA H, Martaulina R, Zairion Z, Renjani RM, et al
Genetic population subdivision of the blue swimming crab (Portunus pelagicus) across Indonesia inferred from mitochondrial DNA: Implication to sustainable fishery.
PLoS One. 2021;16:e0240951.
PubMed Abstract available

FAZZI-GOMES P, Aguiar J, Cabral GF, Marques D, et al
Genomic approach for conservation and the sustainable management of endangered species of the Amazon.
PLoS One. 2021;16:e0240002.
PubMed Abstract available

BARRETT DE, Bartholomew JL
A tale of two fish: Comparative transcriptomics of resistant and susceptible steelhead following exposure to Ceratonova shasta highlights differences in parasite recognition.
PLoS One. 2021;16:e0234837.
PubMed Abstract available

HARDMEIER I, Aeberhard N, Qi W, Schoenbaechler K, et al
Metagenomic analysis of fecal and tissue samples from 18 endemic bat species in Switzerland revealed a diverse virus composition including potentially zoonotic viruses.
PLoS One. 2021;16:e0252534.
PubMed Abstract available

SEYYEDSALEHI SF, Soleymani M, Rabiee HR, Mofrad MRK, et al
PFP-WGAN: Protein function prediction by discovering Gene Ontology term correlations with generative adversarial networks.
PLoS One. 2021;16:e0244430.
PubMed Abstract available

RICHTER J, Fanis P, Tryfonos C, Koptides D, et al
Molecular epidemiology of SARS-CoV-2 in Cyprus.
PLoS One. 2021;16:e0248792.
PubMed Abstract available

LI Q, Yu X, Chen L, Zhao G, et al
Genome-wide identification and expression analysis of the NCED family in cotton (Gossypium hirsutum L.).
PLoS One. 2021;16:e0246021.
PubMed Abstract available

MENDOZA N, Rivas E, Rodriguez-Roisin R, Garcia T, et al
Liver epigenome changes in patients with hepatopulmonary syndrome: A pilot study.
PLoS One. 2021;16:e0245046.
PubMed Abstract available

HEWITSON L, Mathews JA, Devlin M, Schutte C, et al
Blood biomarker discovery for autism spectrum disorder: A proteomic analysis.
PLoS One. 2021;16:e0246581.
PubMed Abstract available

CAI L, Wu H, Zhou K
Improved cancer biomarkers identification using network-constrained infinite latent feature selection.
PLoS One. 2021;16:e0246668.
PubMed Abstract available

LIAO TY, Lu PL, Yu YH, Huang WC, et al
Amphidromous but endemic: Population connectivity of Rhinogobius gigas (Teleostei: Gobioidei).
PLoS One. 2021;16:e0246406.
PubMed Abstract available

DE AK, Sawhney S, Bhattacharya D, Sujatha T, et al
Origin, genetic diversity and evolution of Andaman local duck, a native duck germplasm of an insular region of India.
PLoS One. 2021;16:e0245138.
PubMed Abstract available

LEE N, Kim SM, Lee Y, Jeong D, et al
Prognostic value of integrated cytogenetic, somatic variation, and copy number variation analyses in Korean patients with newly diagnosed multiple myeloma.
PLoS One. 2021;16:e0246322.
PubMed Abstract available

SCHWABER JL, Korbie D, Andersen S, Lin E, et al
Network mapping of primary CD34+ cells by Ampliseq based whole transcriptome targeted resequencing identifies unexplored differentiation regulatory relationships.
PLoS One. 2021;16:e0246107.
PubMed Abstract available

FUKUYAMA K, Asagiri M, Sugimoto M, Tsushima H, et al
Gene expression profiles of liver cancer cell lines reveal two hepatocyte-like and fibroblast-like clusters.
PLoS One. 2021;16:e0245939.
PubMed Abstract available

HAN J, Guo T, Yue Y, Lu Z, et al
Quantitative proteomic analysis identified differentially expressed proteins with tail/rump fat deposition in Chinese thin- and fat-tailed lambs.
PLoS One. 2021;16:e0246279.
PubMed Abstract available

BONIS M, Felten A, Pairaud S, Dijoux A, et al
Comparative phenotypic, genotypic and genomic analyses of Bacillus thuringiensis associated with foodborne outbreaks in France.
PLoS One. 2021;16:e0246885.
PubMed Abstract available

VALLI AT, Koumandou VL, Iatrou G, Andreou M, et al
Conservation biology of threatened Mediterranean chasmophytes: The case of Asperula naufraga endemic to Zakynthos island (Ionian islands, Greece).
PLoS One. 2021;16:e0246706.
PubMed Abstract available

PRASAD K, AlOmar SY, Almuqri EA, Rudayni HA, et al
Genomics-guided identification of potential modulators of SARS-CoV-2 entry proteases, TMPRSS2 and Cathepsins B/L.
PLoS One. 2021;16:e0256141.
PubMed Abstract available

JANSEN GJ, Wiersma M, van Wamel WJB, Wijnberg ID, et al
Direct detection of SARS-CoV-2 antisense and sense genomic RNA in human saliva by semi-autonomous fluorescence in situ hybridization: A proxy for contagiousness?
PLoS One. 2021;16:e0256378.
PubMed Abstract available

LITTERA R, Chessa L, Deidda S, Angioni G, et al
Natural killer-cell immunoglobulin-like receptors trigger differences in immune response to SARS-CoV-2 infection.
PLoS One. 2021;16:e0255608.
PubMed Abstract available

RANA T, Korolkova OY, Rachakonda G, Williams AD, et al
Linking bacterial enterotoxins and alpha defensin 5 expansion in the Crohn's colitis: A new insight into the etiopathogenetic and differentiation triggers driving colonic inflammatory bowel disease.
PLoS One. 2021;16:e0246393.
PubMed Abstract available

OLSEN KS, Holden M, Thalabard JC, Rasmussen Busund LT, et al
Global blood gene expression profiles following a breast cancer diagnosis-Clinical follow-up in the NOWAC post-genome cohort.
PLoS One. 2021;16:e0246650.
PubMed Abstract available

GONCALVES MTV, Morota G, Costa PMA, Vidigal PMP, et al
Near-infrared spectroscopy outperforms genomics for predicting sugarcane feedstock quality traits.
PLoS One. 2021;16:e0236853.
PubMed Abstract available

SOTO-AVILA L, Merce RC, Santos W, Castaneda N, et al
Distribution and preservation of the components of the engulfment. What is beyond representative genomes?
PLoS One. 2021;16:e0246651.
PubMed Abstract available

YANG B, Liu X
Application of proteomics to understand the molecular mechanisms determining meat quality of beef muscles during postmortem aging.
PLoS One. 2021;16:e0246955.
PubMed Abstract available

JIANG Z, Shi Y, Tan G, Wang Z, et al
Computational screening of potential glioma-related genes and drugs based on analysis of GEO dataset and text mining.
PLoS One. 2021;16:e0247612.
PubMed Abstract available

ANDRADE JUSTI S, Soghigian J, Pecor DB, Caicedo-Quiroga L, et al
From e-voucher to genomic data: Preserving archive specimens as demonstrated with medically important mosquitoes (Diptera: Culicidae) and kissing bugs (Hemiptera: Reduviidae).
PLoS One. 2021;16:e0247068.
PubMed Abstract available

SANDOVAL RL, Leite ACR, Barbalho DM, Assad DX, et al
Germline molecular data in hereditary breast cancer in Brazil: Lessons from a large single-center analysis.
PLoS One. 2021;16:e0247363.
PubMed Abstract available

SUHANDYNATA RT, Gao YQ, Zhou AL, Yang Y, et al
Shared and distinct roles of Esc2 and Mms21 in suppressing genome rearrangements and regulating intracellular sumoylation.
PLoS One. 2021;16:e0247132.
PubMed Abstract available

MEHRAJ H, Shea DJ, Takahashi S, Miyaji N, et al
Genome-wide analysis of long noncoding RNAs, 24-nt siRNAs, DNA methylation and H3K27me3 marks in Brassica rapa.
PLoS One. 2021;16:e0242530.
PubMed Abstract available

GEIBEL J, Reimer C, Weigend S, Weigend A, et al
How array design creates SNP ascertainment bias.
PLoS One. 2021;16:e0245178.
PubMed Abstract available

SILVER A, Perez S, Gee M, Xu B, et al
Persistence of the ground beetle (Coleoptera: Carabidae) microbiome to diet manipulation.
PLoS One. 2021;16:e0241529.
PubMed Abstract available

JI Z, Tinti M, Ferguson MAJ
Proteomic identification of the UDP-GlcNAc: PI alpha1-6 GlcNAc-transferase subunits of the glycosylphosphatidylinositol biosynthetic pathway of Trypanosoma brucei.
PLoS One. 2021;16:e0244699.
PubMed Abstract available

MCINTOSH AT, Wei R, Ahn J, Aouizerat BE, et al
A genomic variant of ALPK2 is associated with increased liver fibrosis risk in HIV/HCV coinfected women.
PLoS One. 2021;16:e0247277.
PubMed Abstract available

LI P, Chen C, Li P, Dong Y, et al
A comprehensive examination of the lysine acetylation targets in paper mulberry based on proteomics analyses.
PLoS One. 2021;16:e0240947.
PubMed Abstract available

KIM KS, Jekarl DW, Yoo J, Lee S, et al
Immune gene expression networks in sepsis: A network biology approach.
PLoS One. 2021;16:e0247669.
PubMed Abstract available

HENDERSON D, Zhu SJ, Cole CB, Lunter G, et al
Demographic inference from multiple whole genomes using a particle filter for continuous Markov jump processes.
PLoS One. 2021;16:e0247647.
PubMed Abstract available

PAWAR S, Pandit E, Mohanty IC, Saha D, et al
Population genetic structure and association mapping for iron toxicity tolerance in rice.
PLoS One. 2021;16:e0246232.
PubMed Abstract available

CHEN B, Chu TW, Chiu K, Hong MC, et al
Transcriptomic analysis elucidates the molecular processes associated with hydrogen peroxide-induced diapause termination in Artemia-encysted embryos.
PLoS One. 2021;16:e0247160.
PubMed Abstract available

LI J, Wang Y, Wang L, Zhu J, et al
Integration of transcriptomic and proteomic analyses for finger millet [Eleusine coracana (L.) Gaertn.] in response to drought stress.
PLoS One. 2021;16:e0247181.
PubMed Abstract available

PEI D, Liu Z, Wu W, Hu B, et al
Transcriptome analyses reveal the utilization of nitrogen sources and related metabolic mechanisms of Sporosarcina pasteurii.
PLoS One. 2021;16:e0246818.
PubMed Abstract available

SIM MS, Skennerton CT, Orphan VJ
Physiological, genomic, and sulfur isotopic characterization of methanol metabolism by Desulfovibrio carbinolicus.
PLoS One. 2021;16:e0245069.
PubMed Abstract available

ZEINALABEDINI M, Khoshkholgh Sima NA, Ghaffari MR, Ebadi A, et al
Application of DNA barcodes and spatial analysis in conservation genetics and modeling of Iranian Salicornia genetic resources.
PLoS One. 2021;16:e0241162.
PubMed Abstract available

HEWSON I, Sewell MA
Surveillance of densoviruses and mesomycetozoans inhabiting grossly normal tissues of three Aotearoa New Zealand asteroid species.
PLoS One. 2021;16:e0241026.
PubMed Abstract available

AL-RAJAB M, Lu J, Xu Q
A framework model using multifilter feature selection to enhance colon cancer classification.
PLoS One. 2021;16:e0249094.
PubMed Abstract available

LORUSSO PM, Sekulic A, Sosman JA, Liang WS, et al
Identifying treatment options for BRAFV600 wild-type metastatic melanoma: A SU2C/MRA genomics-enabled clinical trial.
PLoS One. 2021;16:e0248097.
PubMed Abstract available

DINALANKARA W, Ke Q, Geman D, Marchionni L, et al
An R package for divergence analysis of omics data.
PLoS One. 2021;16:e0249002.
PubMed Abstract available

PAPADOPOULOU A, Musa H, Sivaganesan M, McCoy D, et al
COVID-19 susceptibility variants associate with blood clots, thrombophlebitis and circulatory diseases.
PLoS One. 2021;16:e0256988.
PubMed Abstract available

COLE JW, Adigun T, Akinyemi R, Akpa OM, et al
The copy number variation and stroke (CaNVAS) risk and outcome study.
PLoS One. 2021;16:e0248791.
PubMed Abstract available

DAN K, Lee JE, Han D, Kim SM, et al
Proteomic identification of biomarkers in maternal plasma that predict the outcome of rescue cerclage for cervical insufficiency.
PLoS One. 2021;16:e0250031.
PubMed Abstract available

PARRELLO B, Butler R, Chlenski P, Pusch GD, et al
Supervised extraction of near-complete genomes from metagenomic samples: A new service in PATRIC.
PLoS One. 2021;16:e0250092.
PubMed Abstract available

BILLA PA, Faulconnier Y, Ye T, Bourdon C, et al
Nutrigenomic analyses reveal miRNAs and mRNAs affected by feed restriction in the mammary gland of midlactation dairy cows.
PLoS One. 2021;16:e0248680.
PubMed Abstract available

YUN SA, Kim SC
Genetic diversity and structure of Saussurea polylepis (Asteraceae) on continental islands of Korea: Implications for conservation strategies and management.
PLoS One. 2021;16:e0249752.
PubMed Abstract available

FU Y, Thomas A, Gasior D, Harper J, et al
A comparison of shared patterns of differential gene expression and gene ontologies in response to water-stress in roots and leaves of four diverse genotypes of Lolium and Festuca spp. temperate pasture grasses.
PLoS One. 2021;16:e0249636.
PubMed Abstract available

ZHU H, Leung SW
MicroRNA biomarkers of type 2 diabetes: A protocol for corroborating evidence by computational genomics and meta-analyses.
PLoS One. 2021;16:e0247556.
PubMed Abstract available

CHO JC
Human microbiome privacy risks associated with summary statistics.
PLoS One. 2021;16:e0249528.
PubMed Abstract available

BRADFIELD J, Kitchener AC, Buckley M
Selection preferences for animal species used in bone-tool-manufacturing strategies in KwaZulu-Natal, South Africa.
PLoS One. 2021;16:e0249296.
PubMed Abstract available

YOUSEFI-MASHOUF N, Mehrabani-Yeganeh H, Nejati-Javaremi A, Bailey E, et al
Genomic comparisons of Persian Kurdish, Persian Arabian and American Thoroughbred horse populations.
PLoS One. 2021;16:e0247123.
PubMed Abstract available

MASSON F, Rommelaere S, Marra A, Schupfer F, et al
Dual proteomics of Drosophila melanogaster hemolymph infected with the heritable endosymbiont Spiroplasma poulsonii.
PLoS One. 2021;16:e0250524.
PubMed Abstract available

CHAUDHARY P, Khati P, Chaudhary A, Maithani D, et al
Cultivable and metagenomic approach to study the combined impact of nanogypsum and Pseudomonas taiwanensis on maize plant health and its rhizospheric microbiome.
PLoS One. 2021;16:e0250574.
PubMed Abstract available

GONZALEZ-CORONEL JM, Rodriguez-Alonso G, Guevara-Garcia AA
A phylogenetic study of the members of the MAPK and MEK families across Viridiplantae.
PLoS One. 2021;16:e0250584.
PubMed Abstract available

HUANG Y, Chen X, Liu C, Han X, et al
Genetic analysis of 32 InDels in four ethnic minorities from Chinese Xinjiang.
PLoS One. 2021;16:e0250206.
PubMed Abstract available

WANG R, Hu X, Liu X, Bai L, et al
Construction of liver hepatocellular carcinoma-specific lncRNA-miRNA-mRNA network based on bioinformatics analysis.
PLoS One. 2021;16:e0249881.
PubMed Abstract available

CHILAMBI GS, Nordstrom HR, Evans DR, Kowalski RP, et al
Genomic and phenotypic diversity of Enterococcus faecalis isolated from endophthalmitis.
PLoS One. 2021;16:e0250084.
PubMed Abstract available

POSTIC E, Outreman Y, Derocles S, Granado C, et al
Genetics of wild and mass-reared populations of a generalist aphid parasitoid and improvement of biological control.
PLoS One. 2021;16:e0249893.
PubMed Abstract available

SUN X, Zhu H, Li W, Zhao L, et al
Small extracellular vesicles secreted by vaginal fibroblasts exert inhibitory effect in female stress urinary incontinence through regulating the function of fibroblasts.
PLoS One. 2021;16:e0249977.
PubMed Abstract available

MACHADO AF, Ritter CD, Miranda CL, Bredin YK, et al
Potential mammalian species for investigating the past connections between Amazonia and the Atlantic Forest.
PLoS One. 2021;16:e0250016.
PubMed Abstract available

RAWSTHORNE H, Calahorro F, Holden-Dye L, O' Connor V, et al
Investigating autism associated genes in C. elegans reveals candidates with a role in social behaviour.
PLoS One. 2021;16:e0243121.
PubMed Abstract available

ELY B
Genomic GC content drifts downward in most bacterial genomes.
PLoS One. 2021;16:e0244163.
PubMed Abstract available

SOBOLEV VV, Mezentsev AV, Ziganshin RH, Soboleva AG, et al
LC-MS/MS analysis of lesional and normally looking psoriatic skin reveals significant changes in protein metabolism and RNA processing.
PLoS One. 2021;16:e0240956.
PubMed Abstract available

MANOMOHAN V, Saravanan R, Pichler R, Murali N, et al
Legacy of draught cattle breeds of South India: Insights into population structure, genetic admixture and maternal origin.
PLoS One. 2021;16:e0246497.
PubMed Abstract available

GATTO CAFR, Cohn-Haft M
Spatial Congruence Analysis (SCAN): A method for detecting biogeographical patterns based on species range congruences.
PLoS One. 2021;16:e0245818.
PubMed Abstract available

O'SHEA R, Taylor N, Crook A, Jacobs C, et al
Health system interventions to integrate genetic testing in routine oncology services: A systematic review.
PLoS One. 2021;16:e0250379.
PubMed Abstract available

NIGSCH A, Robbe-Austerman S, Stuber TP, Pavinski Bitar PD, et al
Who infects whom?-Reconstructing infection chains of Mycobacterium avium ssp. paratuberculosis in an endemically infected dairy herd by use of genomic data.
PLoS One. 2021;16:e0246983.
PubMed Abstract available

ANTON BP, Fomenkov A, Wu V, Roberts RJ, et al
Genome-wide identification of 5-methylcytosine sites in bacterial genomes by high-throughput sequencing of MspJI restriction fragments.
PLoS One. 2021;16:e0247541.
PubMed Abstract available

BATISTA LG, Gaynor RC, Margarido GRA, Byrne T, et al
Long-term comparison between index selection and optimal independent culling in plant breeding programs with genomic prediction.
PLoS One. 2021;16:e0235554.
PubMed Abstract available

CI J, Wang X, Wang Q, Zhao F, et al
Genome-wide analysis of gibberellin-dioxygenases gene family and their responses to GA applications in maize.
PLoS One. 2021;16:e0250349.
PubMed Abstract available

SUN N, Xie YF, Wu Y, Guo N, et al
Genome-wide identification of ABCC gene family and their expression analysis in pigment deposition of fiber in brown cotton (Gossypium hirsutum).
PLoS One. 2021;16:e0246649.
PubMed Abstract available

HSU CH, Tomiyasu H, Liao CH, Lin CS, et al
Genome-wide DNA methylation and RNA-seq analyses identify genes and pathways associated with doxorubicin resistance in a canine diffuse large B-cell lymphoma cell line.
PLoS One. 2021;16:e0250013.
PubMed Abstract available

MARTINEZ-SANUDO I, Perin C, Cavaletto G, Ortis G, et al
Studying genetic population structure to shed light on the demographic explosion of the rare species Barbitistes vicetinus (Orthoptera, Tettigoniidae).
PLoS One. 2021;16:e0250507.
PubMed Abstract available

DELGADO-SUAREZ EJ, Palos-Guiterrez T, Ruiz-Lopez FA, Hernandez Perez CF, et al
Genomic surveillance of antimicrobial resistance shows cattle and poultry are a moderate source of multi-drug resistant non-typhoidal Salmonella in Mexico.
PLoS One. 2021;16:e0243681.
PubMed Abstract available

OSOZAWA S, Kanai K, Fukuda H, Wakabayashi J, et al
Phylogeography of Ryukyu insular cicadas: Extensive vicariance by island isolation vs accidental dispersal by super typhoon.
PLoS One. 2021;16:e0244342.
PubMed Abstract available

PARK S, Wijeratne AJ, Moon Y, Waterland NL, et al
Time-course transcriptomic analysis of Petunia xhybrida leaves under water deficit stress using RNA sequencing.
PLoS One. 2021;16:e0250284.
PubMed Abstract available

LI Y, Zhao M, Zhang Z
Quantitative proteomics reveals the antifungal effect of canthin-6-one isolated from Ailanthus altissima against Fusarium oxysporum f. sp. cucumerinum in vitro.
PLoS One. 2021;16:e0250712.
PubMed Abstract available

ARIOLI A, Dagliati A, Geary B, Peek N, et al
OptiMissP: A dashboard to assess missingness in proteomic data-independent acquisition mass spectrometry.
PLoS One. 2021;16:e0249771.
PubMed Abstract available

CHOWDHURY UN, Ahmad S, Islam MB, Alyami SA, et al
System biology and bioinformatics pipeline to identify comorbidities risk association: Neurodegenerative disorder case study.
PLoS One. 2021;16:e0250660.
PubMed Abstract available

LIU C, Chen H, Yang X, Zhang C, et al
Exploring the genomic resources of seven domestic Bactrian camel populations in China through restriction site-associated DNA sequencing.
PLoS One. 2021;16:e0250168.
PubMed Abstract available

BAHADO-SINGH RO, Vishweswaraiah S, Aydas B, Yilmaz A, et al
Artificial intelligence and leukocyte epigenomics: Evaluation and prediction of late-onset Alzheimer's disease.
PLoS One. 2021;16:e0248375.
PubMed Abstract available

BUETTI-DINH A, Ruinelli M, Czerski D, Scapozza C, et al
Geochemical and metagenomics study of a metal-rich, green-turquoise-coloured stream in the southern Swiss Alps.
PLoS One. 2021;16:e0248877.
PubMed Abstract available

RUSSUM S, Lam KJK, Wong NA, Iddamsetty V, et al
Comparative population genomic analyses of transporters within the Asgard archaeal superphylum.
PLoS One. 2021;16:e0247806.
PubMed Abstract available

FULTON JC, Amaradasa BS, Ertek TS, Iriarte FB, et al
Phylogenetic and phenotypic characterization of Fusarium oxysporum f. sp. niveum isolates from Florida-grown watermelon.
PLoS One. 2021;16:e0248364.
PubMed Abstract available

AHMAD T, Gupta G, Sharma A, Kaur B, et al
Metagenomic analysis exploring taxonomic and functional diversity of bacterial communities of a Himalayan urban fresh water lake.
PLoS One. 2021;16:e0248116.
PubMed Abstract available

LIU Y, Yao L, Ci Y, Cao X, et al
Genetic differentiation of geographic populations of Rattus tanezumi based on the mitochondrial Cytb gene.
PLoS One. 2021;16:e0248102.
PubMed Abstract available

SZILAGYI A, Bodor A, Tolvai N, Kovacs KL, et al
A comparative analysis of biogas production from tomato bio-waste in mesophilic batch and continuous anaerobic digestion systems.
PLoS One. 2021;16:e0248654.
PubMed Abstract available

ORTOLANO NA, Romero-Morales AI, Rasmussen ML, Bodnya C, et al
A proteomics approach for the identification of cullin-9 (CUL9) related signaling pathways in induced pluripotent stem cell models.
PLoS One. 2021;16:e0248000.
PubMed Abstract available

DE ALMEIDA JR, Riano Pachon DM, Franceschini LM, Dos Santos IB, et al
Revealing the high variability on nonconserved core and mobile elements of Austropuccinia psidii and other rust mitochondrial genomes.
PLoS One. 2021;16:e0248054.
PubMed Abstract available

SHABANNEJAD M, Bihamta MR, Majidi-Hervan E, Alipour H, et al
A classic approach for determining genomic prediction accuracy under terminal drought stress and well-watered conditions in wheat landraces and cultivars.
PLoS One. 2021;16:e0247824.
PubMed Abstract available

AHAMMAD I, Hossain MU, Rahman A, Chowdhury ZM, et al
Wave-wise comparative genomic study for revealing the complete scenario and dynamic nature of COVID-19 pandemic in Bangladesh.
PLoS One. 2021;16:e0258019.
PubMed Abstract available

RAJA A, Malik MFA, Haq F
Genomic relevance of FGF14 and associated genes on the prognosis of pancreatic cancer.
PLoS One. 2021;16:e0252344.
PubMed Abstract available

JAMES N, Bell A
Minimally invasive brain injections for viral-mediated transgenesis: New tools for behavioral genetics in sticklebacks.
PLoS One. 2021;16:e0251653.
PubMed Abstract available

JOHNSON WL, Sohn MB, Taffner S, Chatterjee P, et al
Genomics of Staphylococcus aureus ocular isolates.
PLoS One. 2021;16:e0250975.
PubMed Abstract available

LANGE C, Machado Weber A, Schmidt R, Schroeder C, et al
Changes in protein expression due to metformin treatment and hyperinsulinemia in a human endometrial cancer cell line.
PLoS One. 2021;16:e0248103.
PubMed Abstract available

MACKAY-SMITH A, Dornon MK, Lucier R, Okimoto A, et al
Host-specific gene expression as a tool for introduction success in Naupactus parthenogenetic weevils.
PLoS One. 2021;16:e0248202.
PubMed Abstract available

DIAZ BG, Zucchi MI, Alves-Pereira A, de Almeida CP, et al
Genome-wide SNP analysis to assess the genetic population structure and diversity of Acrocomia species.
PLoS One. 2021;16:e0241025.
PubMed Abstract available

RAHMAN M, Guo Q, Baten A, Mauleon R, et al
Shotgun proteomics of Brassica rapa seed proteins identifies vicilin as a major seed storage protein in the mature seed.
PLoS One. 2021;16:e0253384.
PubMed Abstract available

TABASSUM A, Bag S, Suassuna ND, Conner KN, et al
Genome analysis of cotton leafroll dwarf virus reveals variability in the silencing suppressor protein, genotypes and genomic recombinants in the USA.
PLoS One. 2021;16:e0252523.
PubMed Abstract available

NGWE TUN MM, Kyaw AK, Nabeshima T, Soe AM, et al
Detection of genotype-1 of dengue virus serotype 3 for the first time and complete genome analysis of dengue viruses during the 2018 epidemic in Mandalay, Upper Myanmar.
PLoS One. 2021;16:e0251314.
PubMed Abstract available

CHALAR C, Clivio G, Montagne J, Costabile A, et al
Embryonic developmental arrest in the annual killifish Austrolebias charrua: A proteomic approach to diapause III.
PLoS One. 2021;16:e0251820.
PubMed Abstract available

SILVA DE OLIVEIRA M, Thyeska Castro Alves J, Henrique Caracciolo Gomes de Sa P, Veras AAO, et al
PAN2HGENE-tool for comparative analysis and identifying new gene products.
PLoS One. 2021;16:e0252414.
PubMed Abstract available

CARRILLO-HERNANDEZ MY, Ruiz-Saenz J, Jaimes-Villamizar L, Robledo-Restrepo SM, et al
Phylogenetic and evolutionary analysis of dengue virus serotypes circulating at the Colombian-Venezuelan border during 2015-2016 and 2018-2019.
PLoS One. 2021;16:e0252379.
PubMed Abstract available

RAMIREZ RIOS S, Torres A, Diemer H, Collin-Faure V, et al
A proteomic-informed view of the changes induced by loss of cellular adherence: The example of mouse macrophages.
PLoS One. 2021;16:e0252450.
PubMed Abstract available

RABAGLINO MB, O'Doherty A, Bojsen-Moller Secher J, Lonergan P, et al
Application of multi-omics data integration and machine learning approaches to identify epigenetic and transcriptomic differences between in vitro and in vivo produced bovine embryos.
PLoS One. 2021;16:e0252096.
PubMed Abstract available

JOHNSON KR, Mallon BS, Fann YC, Chen KG, et al
Multivariate meta-analysis reveals global transcriptomic signatures underlying distinct human naive-like pluripotent states.
PLoS One. 2021;16:e0251461.
PubMed Abstract available

KESIMOGLU ZN, Bozdag S
Crinet: A computational tool to infer genome-wide competing endogenous RNA (ceRNA) interactions.
PLoS One. 2021;16:e0251399.
PubMed Abstract available

JOSHI S, Thoday-Kennedy E, Daetwyler HD, Hayden M, et al
High-throughput phenotyping to dissect genotypic differences in safflower for drought tolerance.
PLoS One. 2021;16:e0254908.
PubMed Abstract available

PULUKKODY AC, Yung YP, Donnarumma F, Murray KK, et al
Spatially resolved analysis of Pseudomonas aeruginosa biofilm proteomes measured by laser ablation sample transfer.
PLoS One. 2021;16:e0250911.
PubMed Abstract available

KERZELI IK, Lord M, Doroszko M, Elgendy R, et al
Single-cell RNAseq and longitudinal proteomic analysis of a novel semi-spontaneous urothelial cancer model reveals tumor cell heterogeneity and pretumoral urine protein alterations.
PLoS One. 2021;16:e0253178.
PubMed Abstract available

LIU J, Jiang M, Chen H, Liu Y, et al
Comparative genome analysis revealed gene inversions, boundary expansions and contractions, and gene loss in the Stemona sessilifolia (Miq.) Miq. chloroplast genome.
PLoS One. 2021;16:e0247736.
PubMed Abstract available

CASTRO-PEREIRA D, Peres EA, Pinto-da-Rocha R
Systematics and phylogeography of the Brazilian Atlantic Forest endemic harvestmen Neosadocus Mello-Leitao, 1926 (Arachnida: Opiliones: Gonyleptidae).
PLoS One. 2021;16:e0249746.
PubMed Abstract available

ADDO S, Klingel S, Thaller G, Hinrichs D, et al
Genetic diversity and the application of runs of homozygosity-based methods for inbreeding estimation in German White-headed Mutton sheep.
PLoS One. 2021;16:e0250608.
PubMed Abstract available

JARSBERG LG, Kedia K, Wendler J, Wright AT, et al
Nutritional markers and proteome in patients undergoing treatment for pulmonary tuberculosis differ by geographic region.
PLoS One. 2021;16:e0250586.
PubMed Abstract available

QUINONEZ SC, O'Connor BC, Jacobs MF, Mekonnen Tekleab A, et al
The introduction of genetic counseling in Ethiopia: Results of a training workshop and lessons learned.
PLoS One. 2021;16:e0255278.
PubMed Abstract available

JIN J, Chen B, Zhan X, Zhou Z, et al
Network pharmacology and molecular docking study on the mechanism of colorectal cancer treatment using Xiao-Chai-Hu-Tang.
PLoS One. 2021;16:e0252508.
PubMed Abstract available

HE WP, Gu FF, Zhang J, Li XX, et al
Molecular characteristics and risk factor analysis of Staphylococcus aureus colonization put insight into CC1 colonization in three nursing homes in Shanghai.
PLoS One. 2021;16:e0253858.
PubMed Abstract available

BAAS R, J van der Wal F, Bleijerveld OB, van Attikum H, et al
Proteomic analysis identifies novel binding partners of BAP1.
PLoS One. 2021;16:e0257688.
PubMed Abstract available

AKDEL M, van de Geest H, Schijlen E, van Rijswijck IMH, et al
Signal-based optical map alignment.
PLoS One. 2021;16:e0253102.
PubMed Abstract available

STRINGER DN, Bertozzi T, Meusemann K, Delean S, et al
Development and evaluation of a custom bait design based on 469 single-copy protein-coding genes for exon capture of isopods (Philosciidae: Haloniscus).
PLoS One. 2021;16:e0256861.
PubMed Abstract available

KAFITA D, Nkhoma P, Zulu M, Sinkala M, et al
Proteogenomic analysis of pancreatic cancer subtypes.
PLoS One. 2021;16:e0257084.
PubMed Abstract available

BUCRIS E, Indenbaum V, Azar R, Erster O, et al
Direct sequencing of measles virus complete genomes in the midst of a large-scale outbreak.
PLoS One. 2021;16:e0255663.
PubMed Abstract available

TOMESCU MS, Sooklal SA, Ntsowe T, Naicker P, et al
Transcriptome and proteome of the corm, leaf and flower of Hypoxis hemerocallidea (African potato).
PLoS One. 2021;16:e0253741.
PubMed Abstract available

LIU G, Ma JY, Hu G, Jin H, et al
Identification and validation of a novel ferroptosis-related gene model for predicting the prognosis of gastric cancer patients.
PLoS One. 2021;16:e0254368.
PubMed Abstract available

VERGHESE J, Ayers E, Sathyan S, Lipton RB, et al
Trajectories of frailty in aging: Prospective cohort study.
PLoS One. 2021;16:e0253976.
PubMed Abstract available

MARTINEZ-LIU L, Hernandez-Guerrero R, Rivera-Gomez N, Martinez-Nunez MA, et al
Comparative genomics of DNA-binding transcription factors in archaeal and bacterial organisms.
PLoS One. 2021;16:e0254025.
PubMed Abstract available

JUNG TH, Han KS
Imbalanced dietary intake alters the colonic microbial profile in growing rats.
PLoS One. 2021;16:e0253959.
PubMed Abstract available

TANG X, Li S, Yang X, Tang Q, et al
Novel proteins associated with chronic intermittent hypoxia and obstructive sleep apnea: From rat model to clinical evidence.
PLoS One. 2021;16:e0253943.
PubMed Abstract available

STRASHEIM W, Perovic O, Singh-Moodley A, Kwanda S, et al
Ward-specific clustering of methicillin-resistant Staphylococcus aureus spa-type t037 and t045 in two hospitals in South Africa: 2013 to 2017.
PLoS One. 2021;16:e0253883.
PubMed Abstract available

GAO S, Menendez M, Kurylowicz K, Griffin CT, et al
Genomic locus proteomic screening identifies the NF-kappaB signaling pathway components NFkappaB1 and IKBKG as transcriptional regulators of Ripk3 in endothelial cells.
PLoS One. 2021;16:e0253519.
PubMed Abstract available

CHEN Y, Bi F, Sun Z
A network pharmacology approach to determine the underlying mechanisms of action of Yishen Tongluo formula for the treatment of oligoasthenozoospermia.
PLoS One. 2021;16:e0252906.
PubMed Abstract available

LUEYOT A, Rungsardthong V, Vatanyoopaisarn S, Hutangura P, et al
Influence of collagen and some proteins on gel properties of jellyfish gelatin.
PLoS One. 2021;16:e0253254.
PubMed Abstract available

FLORES-TOLENTINO M, Beltran-Rodriguez L, Morales-Linares J, Ramirez Rodriguez JR, et al
Biogeographic regionalization by spatial and environmental components: Numerical proposal.
PLoS One. 2021;16:e0253152.
PubMed Abstract available

LI X, Tao F, Fan S, Li H, et al
Genetic diversity of Venturia inaequalis isolates (Apple scab) in China and U.K. determined by SSR markers.
PLoS One. 2021;16:e0252865.
PubMed Abstract available

YI G, Shin H, Min K, Lee EJ, et al
Expanded transcriptomic view of strawberry fruit ripening through meta-analysis.
PLoS One. 2021;16:e0252685.
PubMed Abstract available

VIANNA LA, Siqueira MM, Volpini LPB, Louro ID, et al
Seasonality, molecular epidemiology, and virulence of Respiratory Syncytial Virus (RSV): A perspective into the Brazilian Influenza Surveillance Program.
PLoS One. 2021;16:e0251361.
PubMed Abstract available

GENATH A, Petruschke H, von Bergen M, Einspanier R, et al
Influence of formic acid treatment on the proteome of the ectoparasite Varroa destructor.
PLoS One. 2021;16:e0258845.
PubMed Abstract available

FABBRI MC, Dadousis C, Tiezzi F, Maltecca C, et al
Genetic diversity and population history of eight Italian beef cattle breeds using measures of autozygosity.
PLoS One. 2021;16:e0248087.
PubMed Abstract available

ZHU H, Chu W, Han S, Gao B, et al
Urinary proteomics investigations into contrast-induced acute kidney injury.
PLoS One. 2021;16:e0258736.
PubMed Abstract available

ELLEPOLA G, Herath J, Manamendra-Arachchi K, Wijayathilaka N, et al
Molecular species delimitation of shrub frogs of the genus Pseudophilautus (Anura, Rhacophoridae).
PLoS One. 2021;16:e0258594.
PubMed Abstract available

BUSSI Y, Kapon R, Reich Z
Large-scale k-mer-based analysis of the informational properties of genomes, comparative genomics and taxonomy.
PLoS One. 2021;16:e0258693.
PubMed Abstract available

HATSTAT AK, Pupi MD, McCafferty DG
Predicting PY motif-mediated protein-protein interactions in the Nedd4 family of ubiquitin ligases.
PLoS One. 2021;16:e0258315.
PubMed Abstract available

YANG T, Zhang W, Zhou T, Wu W, et al
Plant phenomics & precision agriculture simulation of winter wheat growth by the assimilation of unmanned aerial vehicle imagery into the WOFOST model.
PLoS One. 2021;16:e0246874.
PubMed Abstract available

PREISING GA, Faber-Hammond JJ, Renn SCP
Correspondence of aCGH and long-read genome assembly for detection of copy number differences: A proof-of-concept with cichlid genomes.
PLoS One. 2021;16:e0258193.
PubMed Abstract available

FAVARATO RM, Ribeiro LB, Campos A, Porto JIR, et al
Comparative cytogenetics of Serrasalmidae (Teleostei: Characiformes): The relationship between chromosomal evolution and molecular phylogenies.
PLoS One. 2021;16:e0258003.
PubMed Abstract available

BERKOWSKI B, Zapalski MK, Jarochowska E, Alderslade P, et al
Early development and coloniality in Oligophylloides from the Devonian of Morocco-Are Heterocorallia Palaeozoic octocorals?
PLoS One. 2021;16:e0257523.
PubMed Abstract available

CHUAYPEN N, Limothai U, Kunadirek P, Kaewsapsak P, et al
Identification and validation of circulating miRNAs as potential new biomarkers for severe liver disease in patients with leptospirosis.
PLoS One. 2021;16:e0257805.
PubMed Abstract available

GAO S, Xu G, Zeng Z, Lv J, et al
Transboundary spread of peste des petits ruminants virus in western China: A prediction model.
PLoS One. 2021;16:e0257898.
PubMed Abstract available

PONTES-NOGUEIRA M, Martins M, Alencar LRV, Sawaya RJ, et al
The role of vicariance and dispersal on the temporal range dynamics of forest vipers in the Neotropical region.
PLoS One. 2021;16:e0257519.
PubMed Abstract available

KU H, Kabwe M, Chan HT, Stanton C, et al
Novel Drexlerviridae bacteriophage KMI8 with specific lytic activity against Klebsiella michiganensis and its biofilms.
PLoS One. 2021;16:e0257102.
PubMed Abstract available

OSEI-WUSU S, Otchere ID, Morgan P, Musah AB, et al
Genotypic and phenotypic diversity of Mycobacterium tuberculosis complex genotypes prevalent in West Africa.
PLoS One. 2021;16:e0255433.
PubMed Abstract available

GILLENWATER LA, Helmi S, Stene E, Pratte KA, et al
Multi-omics subtyping pipeline for chronic obstructive pulmonary disease.
PLoS One. 2021;16:e0255337.
PubMed Abstract available

KIM EN, Yu J, Lim JS, Jeong H, et al
CRP immunodeposition and proteomic analysis in abdominal aortic aneurysm.
PLoS One. 2021;16:e0245361.
PubMed Abstract available

MOUTSOURI I, Keravnou A, Manoli P, Bertoncini S, et al
Comparative Y-chromosome analysis among Cypriots in the context of historical events and migrations.
PLoS One. 2021;16:e0255140.
PubMed Abstract available

TOKUTOMI N, Nakai K, Sugano S
Extreme value theory as a framework for understanding mutation frequency distribution in cancer genomes.
PLoS One. 2021;16:e0243595.
PubMed Abstract available

VAID RK, Thakur Z, Anand T, Kumar S, et al
Comparative genome analysis of Salmonella enterica serovar Gallinarum biovars Pullorum and Gallinarum decodes strain specific genes.
PLoS One. 2021;16:e0255612.
PubMed Abstract available

GANGOLA S, Joshi S, Kumar S, Sharma B, et al
Differential proteomic analysis under pesticides stress and normal conditions in Bacillus cereus 2D.
PLoS One. 2021;16:e0253106.
PubMed Abstract available

MCAFEE A, Tarpy DR, Foster LJ
Queen honey bees exhibit variable resilience to temperature stress.
PLoS One. 2021;16:e0255381.
PubMed Abstract available

XU Y, Kong D, Li Z, Qian L, et al
Screening and identification of key biomarkers of papillary renal cell carcinoma by bioinformatic analysis.
PLoS One. 2021;16:e0254868.
PubMed Abstract available

ZARUBIN M, Gangapshev A, Gavriljuk Y, Kazalov V, et al
First transcriptome profiling of D. melanogaster after development in a deep underground low radiation background laboratory.
PLoS One. 2021;16:e0255066.
PubMed Abstract available

CARCAMO DE LA CONCEPCION M, Sargent DJ, Surbanovski N, Colgan RJ, et al
De novo sequencing and analysis of the transcriptome of two highbush blueberry (Vaccinium corymbosum L.) cultivars 'Bluecrop' and 'Legacy' at harvest and following post-harvest storage.
PLoS One. 2021;16:e0255139.
PubMed Abstract available

HAN H, Mu X, Wang P, Wang Z, et al
Identification of LecRLK gene family in Cerasus humilis through genomic-transcriptomic data mining and expression analyses.
PLoS One. 2021;16:e0254535.
PubMed Abstract available

LI Y, Kuhn M, Zukowska-Kasprzyk J, Hennrich ML, et al
Coupling proteomics and metabolomics for the unsupervised identification of protein-metabolite interactions in Chaetomium thermophilum.
PLoS One. 2021;16:e0254429.
PubMed Abstract available

JOHN A, Muenzen K, Ausmees K
Evaluation of serverless computing for scalable execution of a joint variant calling workflow.
PLoS One. 2021;16:e0254363.
PubMed Abstract available

BEZSTAROSTI K, Lamers MM, Doff WAS, Wever PC, et al
Targeted proteomics as a tool to detect SARS-CoV-2 proteins in clinical specimens.
PLoS One. 2021;16:e0259165.
PubMed Abstract available

NIIKURA M, Fukutomi T, Mineo S, Mitobe J, et al
Malaria in the postpartum period causes damage to the mammary gland.
PLoS One. 2021;16:e0258491.
PubMed Abstract available

TZIASTOUDI M, Tsezou A, Stefanidis I
Cadherin and Wnt signaling pathways as key regulators in diabetic nephropathy.
PLoS One. 2021;16:e0255728.
PubMed Abstract available

JIMENEZ-RAMIREZ A, Grivet D, Robledo-Arnuncio JJ
Measuring recent effective gene flow among large populations in Pinus sylvestris: Local pollen shedding does not preclude substantial long-distance pollen immigration.
PLoS One. 2021;16:e0255776.
PubMed Abstract available

RAVELOMBOLA W, Qin J, Shi A, Song Q, et al
Genome-wide association study and genomic selection for yield and related traits in soybean.
PLoS One. 2021;16:e0255761.
PubMed Abstract available

MIO C, Dal Secco C, Marzinotto S, Bruno C, et al
Local occurrence and fast spread of B.1.1.7 lineage: A glimpse into Friuli Venezia Giulia.
PLoS One. 2021;16:e0261229.
PubMed Abstract available

HAENDIGES J, Davidson GR, Pettengill JB, Reed E, et al
Genomic evidence of environmental and resident Salmonella Senftenberg and Montevideo contamination in the pistachio supply-chain.
PLoS One. 2021;16:e0259471.
PubMed Abstract available

GAMAGE NW, Bamforth J, Ashfaq T, Bernard K, et al
Profiling of Bacillus cereus on Canadian grain.
PLoS One. 2021;16:e0259209.
PubMed Abstract available

FOSTER SD, Feutry P, Grewe P, Davies C, et al
Sample size requirements for genetic studies on yellowfin tuna.
PLoS One. 2021;16:e0259113.
PubMed Abstract available

ZHU L, Zhu Z, Zhu L, Wang D, et al
The complete mitogenome of Lysmata vittata (Crustacea: Decapoda: Hippolytidae) with implication of phylogenomics and population genetics.
PLoS One. 2021;16:e0255547.
PubMed Abstract available

KEITH MH, Flinn MV, Durbin HJ, Rowan TN, et al
Genetic ancestry, admixture, and population structure in rural Dominica.
PLoS One. 2021;16:e0258735.
PubMed Abstract available

LETTOOF DC, Thomson VA, Cornelis J, Bateman PW, et al
Bioindicator snake shows genomic signatures of natural and anthropogenic barriers to gene flow.
PLoS One. 2021;16:e0259124.
PubMed Abstract available

NGUYEN XV, Nguyen-Nhat NT, Nguyen XT, Dao VH, et al
Analysis of rDNA reveals a high genetic diversity of Halophila major in the Wallacea region.
PLoS One. 2021;16:e0258956.
PubMed Abstract available

SHAFIE A, Khan S, Batra S, Anjum F, et al
Investigating single amino acid substitutions in PIM1 kinase: A structural genomics approach.
PLoS One. 2021;16:e0258929.
PubMed Abstract available

MATSUMOTO K, Sakami T, Watanabe T, Taniuchi Y, et al
Metagenomic analysis provides functional insights into seasonal change of a non-cyanobacterial prokaryotic community in temperate coastal waters.
PLoS One. 2021;16:e0257862.
PubMed Abstract available

MAROTEAU C, Espuela-Ortiz A, Herrera-Luis E, Srinivasan S, et al
LTA4H rs2660845 association with montelukast response in early and late-onset asthma.
PLoS One. 2021;16:e0257396.
PubMed Abstract available

KIM SS, Hudgins AD, Yang J, Zhu Y, et al
A comprehensive integrated post-GWAS analysis of Type 1 diabetes reveals enhancer-based immune dysregulation.
PLoS One. 2021;16:e0257265.
PubMed Abstract available

GONZALEZ-RINCON J, Garcia-Vela JA, Gomez S, Fernandez-Cuevas B, et al
Genomic mutation profile in progressive chronic lymphocytic leukemia patients prior to first-line chemoimmunotherapy with FCR and rituximab maintenance (REM).
PLoS One. 2021;16:e0257353.
PubMed Abstract available

MAGALHAES KX, Silva RDFD, Sawakuchi AO, Goncalves AP, et al
Phylogeography of Baryancistrus xanthellus (Siluriformes: Loricariidae), a rheophilic catfish endemic to the Xingu River basin in eastern Amazonia.
PLoS One. 2021;16:e0256677.
PubMed Abstract available

MONDAL S, Chakraborty H, Saha S, Dey S, et al
High biogeographic and latitudinal variability in gastropod drilling predation on molluscs along the eastern Indian coast: Implications on the history of fossil record of drillholes.
PLoS One. 2021;16:e0256685.
PubMed Abstract available

CHOI Y, Kim B, Ham S, Chung S, et al
Subanesthetic ketamine rapidly alters medial prefrontal miRNAs involved in ubiquitin-mediated proteolysis.
PLoS One. 2021;16:e0256390.
PubMed Abstract available

TORAL KJ, Wuenschel MA, Black EP
Genomic data from NSCLC tumors reveals correlation between SHP-2 activity and PD-L1 expression and suggests synergy in combining SHP-2 and PD-1/PD-L1 inhibitors.
PLoS One. 2021;16:e0256416.
PubMed Abstract available

BARRECA A, Bottasso E, Veneziano F, Giarin M, et al
Immunohistochemical typing of amyloid in fixed paraffin-embedded samples by an automatic procedure: Comparison with immunofluorescence data on fresh-frozen tissue.
PLoS One. 2021;16:e0256306.
PubMed Abstract available

ZACHO CM, Bager MA, Margaryan A, Gravlund P, et al
Uncovering the genomic and metagenomic research potential in old ethanol-preserved snakes.
PLoS One. 2021;16:e0256353.
PubMed Abstract available

ZYTNICKI M, Gonzalez I
Finding differentially expressed sRNA-Seq regions with srnadiff.
PLoS One. 2021;16:e0256196.
PubMed Abstract available

YAO J, Chen Z, Liu Z
Improved ensemble of differential evolution variants.
PLoS One. 2021;16:e0256206.
PubMed Abstract available

THALDAR D, Townsend B, Botes M, Shozi B, et al
A virtual deliberative public engagement study on heritable genome editing among South Africans: Study protocol.
PLoS One. 2021;16:e0256097.
PubMed Abstract available

PLOYPETCH S, Roytrakul S, Jaresitthikunchai J, Phaonakrop N, et al
Salivary proteomics in monitoring the therapeutic response of canine oral melanoma.
PLoS One. 2021;16:e0256167.
PubMed Abstract available

VAIMBERG E, Demers L, Ford E, Sabatello M, et al
Project Inclusive Genetics: Exploring the impact of patient-centered counseling training on physical disability bias in the prenatal setting.
PLoS One. 2021;16:e0255722.
PubMed Abstract available

FUJIWARA Y, Tanno Y, Sugishita H, Kishi Y, et al
Preparation of optimized concanavalin A-conjugated Dynabeads(R) magnetic beads for CUT&Tag.
PLoS One. 2021;16:e0259846.
PubMed Abstract available

ALKEMA W, Boekhorst J, Eijlander RT, Schnittger S, et al
Charting host-microbe co-metabolism in skin aging and application to metagenomics data.
PLoS One. 2021;16:e0258960.
PubMed Abstract available

DIAZ P, Sarmiento F, Mathew B, Ballvora A, et al
Genomic regions associated with physiological, biochemical and yield-related responses under water deficit in diploid potato at the tuber initiation stage revealed by GWAS.
PLoS One. 2021;16:e0259690.
PubMed Abstract available

YE F, Shi GR, Bitner MA
Global biogeography of living brachiopods: Bioregionalization patterns and possible controls.
PLoS One. 2021;16:e0259004.
PubMed Abstract available

VEARS DF, Minion JT, Roberts SJ, Cummings J, et al
Return of individual research results from genomic research: A systematic review of stakeholder perspectives.
PLoS One. 2021;16:e0258646.
PubMed Abstract available

BOWLER-BARNETT E, Martinez-Garcia FD, Sherwood M, Aleidan A, et al
Proteomic characterization of GSK3beta knockout shows altered cell adhesion and metabolic pathway utilisation in colorectal cancer cells.
PLoS One. 2021;16:e0246707.
PubMed Abstract available

CHRISTENSEN KA, Rondeau EB, Sakhrani D, Biagi CA, et al
The pink salmon genome: Uncovering the genomic consequences of a two-year life cycle.
PLoS One. 2021;16:e0255752.
PubMed Abstract available

DEPASQUALE EAK, Alganem K, Bentea E, Nawreen N, et al
KRSA: An R package and R Shiny web application for an end-to-end upstream kinase analysis of kinome array data.
PLoS One. 2021;16:e0260440.
PubMed Abstract available

PETERSON MJ, Handakumbura PP, Thompson AM, Russell ZR, et al
Deciphering the microbial and molecular responses of geographically diverse Setaria accessions grown in a nutrient-poor soil.
PLoS One. 2021;16:e0259937.
PubMed Abstract available

ZHANG Y, Chen Q, Huang Y, Zhao R, et al
Gene excavation and expression analysis of CYP and UGT related to the post modifying stage of gypenoside biosynthesis in Gynostemma pentaphyllum (Thunb.) Makino by comprehensive analysis of RNA and proteome sequencing.
PLoS One. 2021;16:e0260027.
PubMed Abstract available

O'CONNELL JS, Li B, Zito A, Ahmed A, et al
Treatment of necrotizing enterocolitis by conditioned medium derived from human amniotic fluid stem cells.
PLoS One. 2021;16:e0260522.
PubMed Abstract available

ZIMMERMANN BM, Shaw DM, Elger B, Kone I, et al
The use of heuristics in genetic testing decision-making: A qualitative interview study.
PLoS One. 2021;16:e0260597.
PubMed Abstract available

FAGERQUIST CK, Dodd CE
Top-down proteomic identification of plasmid and host proteins produced by pathogenic Escherichia coli using MALDI-TOF-TOF tandem mass spectrometry.
PLoS One. 2021;16:e0260650.
PubMed Abstract available

XIAO L, Xiao W, Lin S
Ten genes are considered as potential biomarkers for the diagnosis of dermatomyositis.
PLoS One. 2021;16:e0260511.
PubMed Abstract available

CHEN J, Liu K, Zha W, Zhou L, et al
Identification and verification of grain shape QTLs by SNP array in rice.
PLoS One. 2021;16:e0260133.
PubMed Abstract available

HADDAD-BOUBAKER S, Ben Hamda C, Ghedira K, Mefteh K, et al
Phylogeography and phylogeny of Rhinoviruses collected from Severe Acute Respiratory Infection (SARI) cases over successive epidemic periods in Tunisia.
PLoS One. 2021;16:e0259859.
PubMed Abstract available

LIU YY, Chen CC
A machine learning-based typing scheme refinement for Listeria monocytogenes core genome multilocus sequence typing with high discriminatory power for common source outbreak tracking.
PLoS One. 2021;16:e0260293.
PubMed Abstract available

MEHRA Y, Viswanathan P
High-quality whole-genome sequence analysis of Lactobacillus paragasseri UBLG-36 reveals oxalate-degrading potential of the strain.
PLoS One. 2021;16:e0260116.
PubMed Abstract available

CARVALHO CA, Furo IO, O'Brien PCM, Pereira J, et al
Comparative chromosome painting in Spizaetus tyrannus and Gallus gallus with the use of macro- and microchromosome probes.
PLoS One. 2021;16:e0259905.
PubMed Abstract available

MOKHTAR MM, Alsamman AM, Abd-Elhalim HM, El Allali A, et al
CicerSpTEdb: A web-based database for high-resolution genome-wide identification of transposable elements in Cicer species.
PLoS One. 2021;16:e0259540.
PubMed Abstract available

SINGH A, Kumar A, Mehrotra A, A K, et al
Estimation of linkage disequilibrium levels and allele frequency distribution in crossbred Vrindavani cattle using 50K SNP data.
PLoS One. 2021;16:e0259572.
PubMed Abstract available

ALAM MNU, Jewel GMNA, Azim T, Seraj ZI, et al
Novel QTLs for salinity tolerance revealed by genome-wide association studies of biomass, chlorophyll and tissue ion content in 176 rice landraces from Bangladesh.
PLoS One. 2021;16:e0259456.
PubMed Abstract available

LEHOCKA K, Black SA, Harland A, Kadlecik O, et al
Genetic diversity, viability and conservation value of the global captive population of the Moroccan Royal lions.
PLoS One. 2021;16:e0258714.
PubMed Abstract available

NAKAMURA A, Takahashi H, Arai M, Tsuchiya T, et al
Molecular subtyping for source tracking of Escherichia coli using core genome multilocus sequence typing at a food manufacturing plant.
PLoS One. 2021;16:e0261352.
PubMed Abstract available

VOIGT B, Fischer O, Krumnow C, Herta C, et al
NGS read classification using AI.
PLoS One. 2021;16:e0261548.
PubMed Abstract available

TAMANG JP, Kharnaior P, Pariyar P, Thapa N, et al
Shotgun sequence-based metataxonomic and predictive functional profiles of Pe poke, a naturally fermented soybean food of Myanmar.
PLoS One. 2021;16:e0260777.
PubMed Abstract available

DEVANGA RAGUPATHI NK, Muthuirulandi Sethuvel DP, Murugan D, Ranjan R, et al
Divergent evolution of Corynebacterium diphtheriae in India: An update from National Diphtheria Surveillance network.
PLoS One. 2021;16:e0261435.
PubMed Abstract available

DOUGLAS MR, Mussmann SM, Chafin TK, Anthonysamy WJB, et al
Population connectivity in voles (Microtus sp.) as a gauge for tall grass prairie restoration in midwestern North America.
PLoS One. 2021;16:e0260344.
PubMed Abstract available

FOOTE SL, Lipner EM, Prevots DR, Ricotta EE, et al
Environmental predictors of pulmonary nontuberculous mycobacteria (NTM) sputum positivity among persons with cystic fibrosis in the state of Florida.
PLoS One. 2021;16:e0259964.
PubMed Abstract available

VAN HOOFT P, Getz WM, Greyling BJ, Zwaan B, et al
A continent-wide high genetic load in African buffalo revealed by clines in the frequency of deleterious alleles, genetic hitchhiking and linkage disequilibrium.
PLoS One. 2021;16:e0259685.
PubMed Abstract available

SITPRIJA S, Chanhome L, Reamtong O, Thiangtrongjit T, et al
Proteomics and immunocharacterization of Asian mountain pit viper (Ovophis monticola) venom.
PLoS One. 2021;16:e0260496.
PubMed Abstract available

CHAN A, Ayala JM, Alvarez F, Piccirillo C, et al
The role of Leishmania GP63 in the modulation of innate inflammatory response to Leishmania major infection.
PLoS One. 2021;16:e0262158.
PubMed Abstract available

MENG W, Zhao C, Gao Y
Comparison of urine proteome among rat models by intraperitoneal injection with single bacteria and co-injection with two bacteria.
PLoS One. 2021;16:e0261488.
PubMed Abstract available

LAMB HJ, Hayes BJ, Randhawa IAS, Nguyen LT, et al
Genomic prediction using low-coverage portable Nanopore sequencing.
PLoS One. 2021;16:e0261274.
PubMed Abstract available

MITCHELL LJ, Tettamanti V, Rhodes JS, Marshall NJ, et al
CRISPR/Cas9-mediated generation of biallelic F0 anemonefish (Amphiprion ocellaris) mutants.
PLoS One. 2021;16:e0261331.
PubMed Abstract available

ZULKEFLI NJ, Teh CSJ, Mariappan V, Ngoi ST, et al
Genomic comparison and phenotypic profiling of small colony variants of Burkholderia pseudomallei.
PLoS One. 2021;16:e0261382.
PubMed Abstract available

FLANAGAN S, Rowe A, Duggan V, Markle E, et al
Development of a real-time PCR assay to detect the single nucleotide polymorphism causing Warmblood Fragile Foal Syndrome.
PLoS One. 2021;16:e0259316.
PubMed Abstract available

NAZARSHODEH E, Marashi SA, Gharaghani S
Structural systems pharmacology: A framework for integrating metabolic network and structure-based virtual screening for drug discovery against bacteria.
PLoS One. 2021;16:e0261267.
PubMed Abstract available

January 2020

SILVA PIT, Silva-Junior OB, Resende LV, Sousa VA, et al
A 3K Axiom SNP array from a transcriptome-wide SNP resource sheds new light on the genetic diversity and structure of the iconic subtropical conifer tree Araucaria angustifolia (Bert.) Kuntze.
PLoS One. 2020;15:e0230404.
PubMed Abstract available

SUBRAMANI A, Griggs P, Frantzen N, Mendez J, et al
Intracellular Cryptococcus neoformans disrupts the transcriptome profile of M1- and M2-polarized host macrophages.
PLoS One. 2020;15:e0233818.
PubMed Abstract available

KURUMBANG NP, Vera JM, Hebert AS, Coon JJ, et al
Heterologous expression of a glycosyl hydrolase and cellular reprogramming enable Zymomonas mobilis growth on cellobiose.
PLoS One. 2020;15:e0226235.
PubMed Abstract available

ELAMEEN A, Klutsch CFC, Floystad I, Knudsen GK, et al
Large-scale genetic admixture suggests high dispersal in an insect pest, the apple fruit moth.
PLoS One. 2020;15:e0236509.
PubMed Abstract available

HILDERBRAND RH, Keller SR, Laperriere SM, Santoro AE, et al
Microbial communities can predict the ecological condition of headwater streams.
PLoS One. 2020;15:e0236932.
PubMed Abstract available

NAGOSHI RN, Canarte E, Navarrete B, Pico J, et al
The genetic characterization of fall armyworm populations in Ecuador and its implications to migration and pest management in the northern regions of South America.
PLoS One. 2020;15:e0236759.
PubMed Abstract available

MAYNE B, Tucker AD, Berry O, Jarman S, et al
Lifespan estimation in marine turtles using genomic promoter CpG density.
PLoS One. 2020;15:e0236888.
PubMed Abstract available

STEINERT RE, Rehman A, Souto Lima EJ, Agamennone V, et al
Roux-en-Y gastric bypass surgery changes fungal and bacterial microbiota in morbidly obese patients-A pilot study.
PLoS One. 2020;15:e0236936.
PubMed Abstract available

KUMAR C, Kumar R, Singh SK, Goswami AK, et al
Development of novel g-SSR markers in guava (Psidium guajava L.) cv. Allahabad Safeda and their application in genetic diversity, population structure and cross species transferability studies.
PLoS One. 2020;15:e0237538.
PubMed Abstract available

HE J, Wu XL, Zeng Q, Li H, et al
Genomic mating as sustainable breeding for Chinese indigenous Ningxiang pigs.
PLoS One. 2020;15:e0236629.
PubMed Abstract available

MARINOS G, Kaleta C, Waschina S
Defining the nutritional input for genome-scale metabolic models: A roadmap.
PLoS One. 2020;15:e0236890.
PubMed Abstract available

NOBLE AS, Noe S, Clearwater MJ, Lee CK, et al
A core phyllosphere microbiome exists across distant populations of a tree species indigenous to New Zealand.
PLoS One. 2020;15:e0237079.
PubMed Abstract available

LI DM, Ye YJ, Xu YC, Liu JM, et al
Complete chloroplast genomes of Zingiber montanum and Zingiber zerumbet: Genome structure, comparative and phylogenetic analyses.
PLoS One. 2020;15:e0236590.
PubMed Abstract available

BRUGGEMAN SA, Horvath DP, Fennell AY, Gonzalez-Hernandez JL, et al
Teosinte (Zea mays ssp parviglumis) growth and transcriptomic response to weed stress identifies similarities and differences between varieties and with modern maize varieties.
PLoS One. 2020;15:e0237715.
PubMed Abstract available

ARROYO MUHR LS, Lagheden C, Hassan SS, Kleppe SN, et al
De novo sequence assembly requires bioinformatic checking of chimeric sequences.
PLoS One. 2020;15:e0237455.
PubMed Abstract available

WOODHOUSE R, Li M, Hughes J, Delfosse D, et al
Clinical and analytical validation of FoundationOne Liquid CDx, a novel 324-Gene cfDNA-based comprehensive genomic profiling assay for cancers of solid tumor origin.
PLoS One. 2020;15:e0237802.
PubMed Abstract available

METHE BA, Hiltbrand D, Roach J, Xu W, et al
Functional gene categories differentiate maize leaf drought-related microbial epiphytic communities.
PLoS One. 2020;15:e0237493.
PubMed Abstract available

ZHANG Z, Xiao W, Qiu J, Xin Y, et al
Nystose regulates the response of rice roots to cold stress via multiple signaling pathways: A comparative proteomics analysis.
PLoS One. 2020;15:e0238381.
PubMed Abstract available

CHOI YH, Zhang X, Srinivasamoorthy G, Purdy MA, et al
Transcriptome analysis in rhesus macaques infected with hepatitis E virus genotype 1/3 infections and genotype 1 re-infection.
PLoS One. 2020;15:e0237618.
PubMed Abstract available

CHEN X, Huang S, Jiang M, Chen Y, et al
Genome-wide identification and expression analysis of the SR gene family in longan (Dimocarpus longan Lour.).
PLoS One. 2020;15:e0238032.
PubMed Abstract available

GAAFAR YZA, Ziebell H
Comparative study on three viral enrichment approaches based on RNA extraction for plant virus/viroid detection using high-throughput sequencing.
PLoS One. 2020;15:e0237951.
PubMed Abstract available

PEREZ-RODRIGUEZ S, de Jesus Ramirez-Lira M, Wulff T, Voldbor BG, et al
Enrichment of microsomes from Chinese hamster ovary cells by subcellular fractionation for its use in proteomic analysis.
PLoS One. 2020;15:e0237930.
PubMed Abstract available

CHOI SK, Kim KS, Ranyuk M, Babaev E, et al
Asia-wide phylogeography of wild boar (Sus scrofa) based on mitochondrial DNA and Y-chromosome: Revising the migration routes of wild boar in Asia.
PLoS One. 2020;15:e0238049.
PubMed Abstract available

KWAK GY, Goo E, Jeong H, Hwang I, et al
Adverse effects of adaptive mutation to survive static culture conditions on successful fitness of the rice pathogen Burkholderia glumae in a host.
PLoS One. 2020;15:e0238151.
PubMed Abstract available

HAN R, Wei Y, Xie Y, Liu L, et al
Quantitative phosphoproteomic analysis provides insights into the aluminum-responsiveness of Tamba black soybean.
PLoS One. 2020;15:e0237845.
PubMed Abstract available

HASAN M, Azim KF, Imran MAS, Chowdhury IM, et al
Comprehensive genome based analysis of Vibrio parahaemolyticus for identifying novel drug and vaccine molecules: Subtractive proteomics and vaccinomics approach.
PLoS One. 2020;15:e0237181.
PubMed Abstract available

YUN SA, Son HD, Im HT, Kim SC, et al
Genetic diversity and population structure of the endangered orchid Pelatantheria scolopendrifolia (Orchidaceae) in Korea.
PLoS One. 2020;15:e0237546.
PubMed Abstract available

KORONA D, Nightingale D, Fabre B, Nelson M, et al
Characterisation of protein isoforms encoded by the Drosophila Glycogen Synthase Kinase 3 gene shaggy.
PLoS One. 2020;15:e0236679.
PubMed Abstract available

REN X, Kuan PF
RNAAgeCalc: A multi-tissue transcriptional age calculator.
PLoS One. 2020;15:e0237006.
PubMed Abstract available

DADJO C, Nyende AB, Yao N, Kiplangat N, et al
Genome-wide genetic diversity and population structure of Garcinia kola (Heckel) in Benin using DArT-Seq technology.
PLoS One. 2020;15:e0238984.
PubMed Abstract available

MEISSNER K, Lutter D, von Toerne C, Haile A, et al
Molecular classification of the placebo effect in nausea.
PLoS One. 2020;15:e0238533.
PubMed Abstract available

CRANDALL SG, Gold KM, Jimenez-Gasco MDM, Filgueiras CC, et al
A multi-omics approach to solving problems in plant disease ecology.
PLoS One. 2020;15:e0237975.
PubMed Abstract available

POORMOHAMMADI H, Sardari Zarchi M
Netcombin: An algorithm for constructing optimal phylogenetic network from rooted triplets.
PLoS One. 2020;15:e0227842.
PubMed Abstract available

SONDERTOFT NB, Vogt JK, Arumugam M, Kristensen M, et al
The intestinal microbiome is a co-determinant of the postprandial plasma glucose response.
PLoS One. 2020;15:e0238648.
PubMed Abstract available

CRANDALL H, Kapusta A, Killpack J, Heyrend C, et al
Clinical and molecular epidemiology of invasive Staphylococcus aureus infection in Utah children; continued dominance of MSSA over MRSA.
PLoS One. 2020;15:e0238991.
PubMed Abstract available

CHAN LM, Painter CW, Hill MT, Hibbitts TJ, et al
Phylogeographic structure of the dunes sagebrush lizard, an endemic habitat specialist.
PLoS One. 2020;15:e0238194.
PubMed Abstract available

ZHANG W, Xu S, Shi L, Zhu Z, et al
Construction and analysis of a competing endogenous RNA network to reveal potential prognostic biomarkers for Oral Floor Squamous Cell Carcinoma.
PLoS One. 2020;15:e0238420.
PubMed Abstract available

BODEWES R, Reijnen L, Kerkhof J, Cremer J, et al
Molecular epidemiology of mumps viruses in the Netherlands, 2017-2019.
PLoS One. 2020;15:e0233143.
PubMed Abstract available

CAO H, He X, Du J, Zhang R, et al
Time-series transcriptomic analysis reveals novel gene modules that control theanine biosynthesis in tea plant (Camellia sinensis).
PLoS One. 2020;15:e0238175.
PubMed Abstract available

ZHA W, You A
Comparative iTRAQ proteomic profiling of proteins associated with the adaptation of brown planthopper to moderately resistant vs. susceptible rice varieties.
PLoS One. 2020;15:e0238549.
PubMed Abstract available

GUERREIRO EM, Ovstebo R, Thiede B, Costea DE, et al
Cancer cell line-specific protein profiles in extracellular vesicles identified by proteomics.
PLoS One. 2020;15:e0238591.
PubMed Abstract available

BARTLETT JMS, Bayani J, Kornaga EN, Danaher P, et al
Computational approaches to support comparative analysis of multiparametric tests: Modelling versus Training.
PLoS One. 2020;15:e0238593.
PubMed Abstract available

AKGUN E, Tuzuner MB, Sahin B, Kilercik M, et al
Proteins associated with neutrophil degranulation are upregulated in nasopharyngeal swabs from SARS-CoV-2 patients.
PLoS One. 2020;15:e0240012.
PubMed Abstract available

GHODOUSI A, Borroni E, Peracchi M, Palu G, et al
Genomic analysis of cardiac surgery-associated Mycobacterium chimaera infections in Italy.
PLoS One. 2020;15:e0239273.
PubMed Abstract available

HEBERT L, Hillman P, Baker C, Brown M, et al
Burden of rare deleterious variants in WNT signaling genes among 511 myelomeningocele patients.
PLoS One. 2020;15:e0239083.
PubMed Abstract available

DUMIDAE A, Janthu P, Subkrasae C, Pumidonming W, et al
Genetic analysis of Cryptozona siamensis (Stylommatophora, Ariophantidae) populations in Thailand using the mitochondrial 16S rRNA and COI sequences.
PLoS One. 2020;15:e0239264.
PubMed Abstract available

PLANT EP, Manukyan H, Laassri M, Ye Z, et al
Insights from the comparison of genomic variants from two influenza B viruses grown in the presence of human antibodies in cell culture.
PLoS One. 2020;15:e0239015.
PubMed Abstract available

ISHIKAWA Y, Nakai K
A hypothetical trivalent epigenetic code that affects the nature of human ESCs.
PLoS One. 2020;15:e0238742.
PubMed Abstract available

BARKER H, Parkkila S
Bioinformatic characterization of angiotensin-converting enzyme 2, the entry receptor for SARS-CoV-2.
PLoS One. 2020;15:e0240647.
PubMed Abstract available

PAVLIKOVA N, Sramek J, Jelinek M, Halada P, et al
Markers of acute toxicity of DDT exposure in pancreatic beta-cells determined by a proteomic approach.
PLoS One. 2020;15:e0229430.
PubMed Abstract available

GUTIERREZ M, Smith R
XFlow: An algorithm for extracting ion chromatograms.
PLoS One. 2020;15:e0227659.
PubMed Abstract available

SUPELETO FA, Santos BF, Basilio LA, Aguiar AP, et al
Species delimitation, environmental cline and phylogeny for a new Neotropical genus of Cryptinae (Ichneumonidae).
PLoS One. 2020;15:e0237233.
PubMed Abstract available

HADI S, Andayani N, Muttaqin E, Simeon BM, et al
Genetic connectivity of the scalloped hammerhead shark Sphyrna lewini across Indonesia and the Western Indian Ocean.
PLoS One. 2020;15:e0230763.
PubMed Abstract available

SILVA RRD, Vilela B, Silva DP, Andrade AFA, et al
The role of ecological niche evolution on diversification patterns of birds distinctly distributed between the Amazonia and Atlantic rainforests.
PLoS One. 2020;15:e0238729.
PubMed Abstract available

ABUIN JM, Lopes N, Ferreira L, Pena TF, et al
Big Data in metagenomics: Apache Spark vs MPI.
PLoS One. 2020;15:e0239741.
PubMed Abstract available

DU J, Xia J, Li S, Shen Y, et al
Evolutionary dynamics and transmission patterns of Newcastle disease virus in China through Bayesian phylogeographical analysis.
PLoS One. 2020;15:e0239809.
PubMed Abstract available

SEO HS, Kim SH, Kim SC
Chloroplast DNA insights into the phylogenetic position and anagenetic speciation of Phedimus takesimensis (Crassulaceae) on Ulleung and Dokdo Islands, Korea.
PLoS One. 2020;15:e0239734.
PubMed Abstract available

AFRIN K, Iquebal AS, Karimi M, Souris A, et al
Directionally dependent multi-view clustering using copula model.
PLoS One. 2020;15:e0238996.
PubMed Abstract available

KETEMA S, Tesfaye B, Keneni G, Amsalu Fenta B, et al
DArTSeq SNP-based markers revealed high genetic diversity and structured population in Ethiopian cowpea [Vigna unguiculata (L.) Walp] germplasms.
PLoS One. 2020;15:e0239122.
PubMed Abstract available

SASAKI N, Iwaya T, Chiba T, Fujita M, et al
Analysis of mutational and proteomic heterogeneity of gastric cancer suggests an effective pipeline to monitor post-treatment tumor burden using circulating tumor DNA.
PLoS One. 2020;15:e0239966.
PubMed Abstract available

MAKOUKJI J, El-Sitt S, Makhoul NJ, Soueid J, et al
Sex differences in gene expression with galactosylceramide treatment in Cln3Deltaex7/8 mice.
PLoS One. 2020;15:e0239537.
PubMed Abstract available

TONIONE MA, Bi K, Tsutsui ND
Transcriptomic signatures of cold adaptation and heat stress in the winter ant (Prenolepis imparis).
PLoS One. 2020;15:e0239558.
PubMed Abstract available

FADDA M, Chappuis PO, Katapodi MC, Pagani O, et al
Physicians communicating with women at genetic risk of breast and ovarian cancer: Are we in the middle of the ford between contradictory messages and unshared decision making?
PLoS One. 2020;15:e0240054.
PubMed Abstract available

BLANCO JC, Ballesteros F, Palomero G, Lopez-Bao JV, et al
Not exodus, but population increase and gene flow restoration in Cantabrian brown bear (Ursus arctos) subpopulations. Comment on Gregorio et al. 2020.
PLoS One. 2020;15:e0240698.
PubMed Abstract available

BRITO PM, Figueiredo FJ, Leal MEC
A revision of Laeliichthys ancestralis Santos, 1985 (Teleostei: Osteoglossomorpha) from the Lower Cretaceous of Brazil: Phylogenetic relationships and biogeographical implications.
PLoS One. 2020;15:e0241009.
PubMed Abstract available

BO C, Geng X, Zhang J, Sai L, et al
Comparative proteomic analysis of silica-induced pulmonary fibrosis in rats based on tandem mass tag (TMT) quantitation technology.
PLoS One. 2020;15:e0241310.
PubMed Abstract available

SUNDMAN AS, Pertille F, Lehmann Coutinho L, Jazin E, et al
DNA methylation in canine brains is related to domestication and dog-breed formation.
PLoS One. 2020;15:e0240787.
PubMed Abstract available

WU B, Jiang S, Wang X, Zhong S, et al
Identification of driver genes and key pathways of non-functional pituitary adenomas predicts the therapeutic effect of STO-609.
PLoS One. 2020;15:e0240230.
PubMed Abstract available

PERLEJEWSKI K, Bukowska-Osko I, Rydzanicz M, Dzieciatkowski T, et al
Search for viral agents in cerebrospinal fluid in patients with multiple sclerosis using real-time PCR and metagenomics.
PLoS One. 2020;15:e0240601.
PubMed Abstract available

KO G, Jang I, Koo N, Park SJ, et al
Prometheus, an omics portal for interkingdom comparative genomic analyses.
PLoS One. 2020;15:e0240191.
PubMed Abstract available

LIU L, Wang R, Ding H, Tian L, et al
The utility of urinary biomarker panel in predicting renal pathology and treatment response in Chinese lupus nephritis patients.
PLoS One. 2020;15:e0240942.
PubMed Abstract available

ABSHIRU NA, Sikora JW, Camarillo JM, Morris JA, et al
Targeted detection and quantitation of histone modifications from 1,000 cells.
PLoS One. 2020;15:e0240829.
PubMed Abstract available

IVANOV DK, Bostelmann G, Lan-Leung B, Williams J, et al
A novel computational approach for predicting complex phenotypes in Drosophila (starvation-sensitive and sterile) by deriving their gene expression signatures from public data.
PLoS One. 2020;15:e0240824.
PubMed Abstract available

LEBEDEV A, Pasechnik O, Ozhmegova E, Antonova A, et al
Prevalence and spatiotemporal dynamics of HIV-1 Circulating Recombinant Form 03_AB (CRF03_AB) in the Former Soviet Union countries.
PLoS One. 2020;15:e0241269.
PubMed Abstract available

VISHNUKIRAN T, Neeraja CN, Jaldhani V, Vijayalakshmi P, et al
A major pleiotropic QTL identified for yield components and nitrogen content in rice (Oryza sativa L.) under differential nitrogen field conditions.
PLoS One. 2020;15:e0240854.
PubMed Abstract available

HIRAI N, Kasahara K, Nakano R, Ogawa Y, et al
Clinical characteristics and molecular epidemiology of invasive Streptococcus agalactiae infections between 2007 and 2016 in Nara, Japan.
PLoS One. 2020;15:e0240590.
PubMed Abstract available

MILUCKY J, Pondo T, Gregory CJ, Iuliano D, et al
The epidemiology and estimated etiology of pathogens detected from the upper respiratory tract of adults with severe acute respiratory infections in multiple countries, 2014-2015.
PLoS One. 2020;15:e0240309.
PubMed Abstract available

GAO Y, Zhu C, Li K, Cheng X, et al
Comparative proteomics analysis of dietary restriction in Drosophila.
PLoS One. 2020;15:e0240596.
PubMed Abstract available

MOGAKA JJO, Chimbari MJ
The mediating effects of public genomic knowledge in precision medicine implementation: A structural equation model approach.
PLoS One. 2020;15:e0240585.
PubMed Abstract available

INGASIA LAO, Kostaki EG, Paraskevis D, Kramvis A, et al
Global and regional dispersal patterns of hepatitis B virus genotype E from and in Africa: A full-genome molecular analysis.
PLoS One. 2020;15:e0240375.
PubMed Abstract available

KRISHNAKUMARIAMMA K, Ellappan K, Muthuraj M, Tamilarasu K, et al
Molecular diagnosis, genetic diversity and drug sensitivity patterns of Mycobacterium tuberculosis strains isolated from tuberculous meningitis patients at a tertiary care hospital in South India.
PLoS One. 2020;15:e0240257.
PubMed Abstract available

CHEN ZY, Xie DF, Liu ZY, Zhong YQ, et al
Identification of the significant pathways of Banxia Houpu decoction in the treatment of depression based on network pharmacology.
PLoS One. 2020;15:e0239843.
PubMed Abstract available

DANG H, Polineni D, Pace RG, Stonebraker JR, et al
Mining GWAS and eQTL data for CF lung disease modifiers by gene expression imputation.
PLoS One. 2020;15:e0239189.
PubMed Abstract available

DU S, Li J, Bian N
A compression method for DNA.
PLoS One. 2020;15:e0238220.
PubMed Abstract available

KUSCH N, Schuppert A
Two-step multi-omics modelling of drug sensitivity in cancer cell lines to identify driving mechanisms.
PLoS One. 2020;15:e0238961.
PubMed Abstract available

WANG C, Ma X, Ren M, Tang L, et al
Genetic diversity and population structure in the endangered tree Hopea hainanensis (Dipterocarpaceae) on Hainan Island, China.
PLoS One. 2020;15:e0241452.
PubMed Abstract available

STERN F, Delaval M, Kampourakis K, Muller A, et al
Implicit associations of teleology and essentialism concepts with genetics concepts among secondary school students.
PLoS One. 2020;15:e0242189.
PubMed Abstract available

VEZINA B, Petit GA, Martin JL, Halili MA, et al
Prediction of Burkholderia pseudomallei DsbA substrates identifies potential virulence factors and vaccine targets.
PLoS One. 2020;15:e0241306.
PubMed Abstract available

ALKANDARI SA, Bhardwaj RG, Ellepola A, Karched M, et al
Proteomics of extracellular vesicles produced by Granulicatella adiacens, which causes infective endocarditis.
PLoS One. 2020;15:e0227657.
PubMed Abstract available

ZHAO C, Ni H, Zhao L, Zhou L, et al
High nitrogen concentration alter microbial community in Allium fistulosum rhizosphere.
PLoS One. 2020;15:e0241371.
PubMed Abstract available

DAGTEKIN D, Sahan EA, Denk T, Kose N, et al
Past, present and future distributions of Oriental beech (Fagus orientalis) under climate change projections.
PLoS One. 2020;15:e0242280.
PubMed Abstract available

HUANG B, Gan L, Chen D, Zhang Y, et al
Integration of small RNA, degradome and proteome sequencing in Oryza sativa reveals a delayed senescence network in tetraploid rice seed.
PLoS One. 2020;15:e0242260.
PubMed Abstract available

MO W, Ding Y, Zhao S, Zou D, et al
Identification of a 6-gene signature for the survival prediction of breast cancer patients based on integrated multi-omics data analysis.
PLoS One. 2020;15:e0241924.
PubMed Abstract available

SAJULGA R, Easterly C, Riffle M, Mesuere B, et al
Survey of metaproteomics software tools for functional microbiome analysis.
PLoS One. 2020;15:e0241503.
PubMed Abstract available

OU J, Liu H, Nirala NK, Stukalov A, et al
dagLogo: An R/Bioconductor package for identifying and visualizing differential amino acid group usage in proteomics data.
PLoS One. 2020;15:e0242030.
PubMed Abstract available

SANGKAEW O, Phaonakrop N, Roytrakul S, Yompakdee C, et al
Metaproteomic investigation of functional insight into special defined microbial starter on production of fermented rice with melanogenesis inhibition activity.
PLoS One. 2020;15:e0241819.
PubMed Abstract available

WEBB JL, Bries AE, Vogel B, Carrillo C, et al
Whole egg consumption increases gene expression within the glutathione pathway in the liver of Zucker Diabetic Fatty rats.
PLoS One. 2020;15:e0240885.
PubMed Abstract available

LIU EM, Luna A, Dong G, Sander C, et al
netboxr: Automated discovery of biological process modules by network analysis in R.
PLoS One. 2020;15:e0234669.
PubMed Abstract available

DEY SK, Sharif N, Sarkar OS, Sarkar MK, et al
Molecular epidemiology and surveillance of circulating rotavirus among children with gastroenteritis in Bangladesh during 2014-2019.
PLoS One. 2020;15:e0242813.
PubMed Abstract available

TURK S, Turk C, Akbar MW, Kucukkaraduman B, et al
Renin angiotensin system genes are biomarkers for personalized treatment of acute myeloid leukemia with Doxorubicin as well as etoposide.
PLoS One. 2020;15:e0242497.
PubMed Abstract available

LI J, Ye GY, Liu HL, Wang ZH, et al
Complete chloroplast genomes of three important species, Abelmoschus moschatus, A. manihot and A. sagittifolius: Genome structures, mutational hotspots, comparative and phylogenetic analysis in Malvaceae.
PLoS One. 2020;15:e0242591.
PubMed Abstract available

FENG X, Lai RL, Gao MX, Chen WG, et al
Characterization and complete genome sequences of two novel variants of the family Closteroviridae from Chinese kiwifruit.
PLoS One. 2020;15:e0242362.
PubMed Abstract available

NGAMNIYOM A
Molecular assessment and transcriptome profiling of wild fish populations of Oryzias mekongensis and O. songkhramensis (Adrianichthyidae: Beloniformes) from Thailand.
PLoS One. 2020;15:e0242382.
PubMed Abstract available

GALATAUD J, Delatte H, Techer MA, Simiand C, et al
When European meets African honeybees (Apis mellifera L.) in the tropics: Morphological changes related to genetics in Mauritius Island (South-West Indian Ocean).
PLoS One. 2020;15:e0242053.
PubMed Abstract available

WINNARD PT JR, Vesuna F, Muthukumar S, Raman V, et al
Divergent organ-specific isogenic metastatic cell lines identified using multi-omics exhibit differential drug sensitivity.
PLoS One. 2020;15:e0242384.
PubMed Abstract available

DOAN TH, Yen-Nicolay S, Bernet-Camard MF, Martin-Verstraete I, et al
Impact of subinhibitory concentrations of metronidazole on proteome of Clostridioides difficile strains with different levels of susceptibility.
PLoS One. 2020;15:e0241903.
PubMed Abstract available

HIPFNER JM, Prill MM, Studholme KR, Domalik AD, et al
Geolocator tagging links distributions in the non-breeding season to population genetic structure in a sentinel North Pacific seabird.
PLoS One. 2020;15:e0240056.
PubMed Abstract available

DE SOUSA-D'AURIA C, Constantinesco-Becker F, Constant P, Tropis M, et al
Genome-wide identification of novel genes involved in Corynebacteriales cell envelope biogenesis using Corynebacterium glutamicum as a model.
PLoS One. 2020;15:e0240497.
PubMed Abstract available

SCHULZ C, Almaas E
Genome-scale reconstructions to assess metabolic phylogeny and organism clustering.
PLoS One. 2020;15:e0240953.
PubMed Abstract available

ARNADOTTIR SS, Mattesen TB, Vang S, Madsen MR, et al
Transcriptomic and proteomic intra-tumor heterogeneity of colorectal cancer varies depending on tumor location within the colorectum.
PLoS One. 2020;15:e0241148.
PubMed Abstract available

THORSON JLM, Beck D, Ben Maamar M, Nilsson EE, et al
Epigenome-wide association study for atrazine induced transgenerational DNA methylation and histone retention sperm epigenetic biomarkers for disease.
PLoS One. 2020;15:e0239380.
PubMed Abstract available

YAMAMOTO H, Uchida Y, Chiba T, Kurimoto R, et al
Transcriptome analysis of sevoflurane exposure effects at the different brain regions.
PLoS One. 2020;15:e0236771.
PubMed Abstract available

SHI Y, Gong W, Gong X, Wang P, et al
Genome-wide DNA methylation analysis of breast cancer MCF-7 / Taxol cells with MeDIP-Seq.
PLoS One. 2020;15:e0241515.
PubMed Abstract available

HART RK, Prlic A
SeqRepo: A system for managing local collections of biological sequences.
PLoS One. 2020;15:e0239883.
PubMed Abstract available

MIN K, Yi G, Lee JG, Kim HS, et al
Comparative transcriptome and metabolome analyses of two strawberry cultivars with different storability.
PLoS One. 2020;15:e0242556.
PubMed Abstract available

LEE HJ, Chung YJ, Jang S, Seo DW, et al
Genome-wide identification of major genes and genomic prediction using high-density and text-mined gene-based SNP panels in Hanwoo (Korean cattle).
PLoS One. 2020;15:e0241848.
PubMed Abstract available

KIM JH, Park JS, Lee CY, Jeong MG, et al
Dissecting seed pigmentation-associated genomic loci and genes by employing dual approaches of reference-based and k-mer-based GWAS with 438 Glycine accessions.
PLoS One. 2020;15:e0243085.
PubMed Abstract available

KRUTZFELDT LM, Schubach M, Kircher M
The impact of different negative training data on regulatory sequence predictions.
PLoS One. 2020;15:e0237412.
PubMed Abstract available

REILLY J, Gallagher L, Leader G, Shen S, et al
Coupling of autism genes to tissue-wide expression and dysfunction of synapse, calcium signalling and transcriptional regulation.
PLoS One. 2020;15:e0242773.
PubMed Abstract available

DE LOS CAMPOS G, Pook T, Gonzalez-Reymundez A, Simianer H, et al
ANOVA-HD: Analysis of variance when both input and output layers are high-dimensional.
PLoS One. 2020;15:e0243251.
PubMed Abstract available

MARTINEZ BARRERA S, Byrum S, Mackintosh SG, Kozubowski L, et al
Registered report protocol: Quantitative analysis of septin Cdc10-associated proteome in Cryptococcus neoformans.
PLoS One. 2020;15:e0242381.
PubMed Abstract available

DUMAIDI K, Qaraqe H, Al-Jawabreh A, Abu-Helu R, et al
Genetic diversity, haplotype analysis, and risk factor assessment of hepatitis A virus isolates from the West Bank, Palestine during the period between 2014 and 2016.
PLoS One. 2020;15:e0240339.
PubMed Abstract available

WONFOR RE, Creevey CJ, Natoli M, Hegarty M, et al
Interaction of preimplantation factor with the global bovine endometrial transcriptome.
PLoS One. 2020;15:e0242874.
PubMed Abstract available

LI H, Liang X, Zhou B, Chen X, et al
A proteomic analysis of peanut seed at different stages of underground development to understand the changes of seed proteins.
PLoS One. 2020;15:e0243132.
PubMed Abstract available

WRIGGLESWORTH DJ, Goonatilleke E, Haydock R, Hughes KR, et al
High-throughput glycomic analyses reveal unique oligosaccharide profiles of canine and feline milk samples.
PLoS One. 2020;15:e0243323.
PubMed Abstract available

EKMAN L, Bagge E, Nyman A, Persson Waller K, et al
A shotgun metagenomic investigation of the microbiota of udder cleft dermatitis in comparison to healthy skin in dairy cows.
PLoS One. 2020;15:e0242880.
PubMed Abstract available

YU G, Zhao W, Shen Y, Zhu P, et al
Metagenomic next generation sequencing for the diagnosis of tuberculosis meningitis: A systematic review and meta-analysis.
PLoS One. 2020;15:e0243161.
PubMed Abstract available

LI Q, Ma C, Tai H, Qiu H, et al
Comparative transcriptome analysis of two rice genotypes differing in their tolerance to saline-alkaline stress.
PLoS One. 2020;15:e0243112.
PubMed Abstract available

NIRAULA PM, Sharma K, McNeece BT, Troell HA, et al
Mitogen activated protein kinase (MAPK)-regulated genes with predicted signal peptides function in the Glycine max defense response to the root pathogenic nematode Heterodera glycines.
PLoS One. 2020;15:e0241678.
PubMed Abstract available

WU Z, Hai E, Di Z, Ma R, et al
Using WGCNA (weighted gene co-expression network analysis) to identify the hub genes of skin hair follicle development in fetus stage of Inner Mongolia cashmere goat.
PLoS One. 2020;15:e0243507.
PubMed Abstract available

DE LEMOS APS, Sacchi CT, Goncalves CR, Camargo CH, et al
Genomic surveillance of Neisseria meningitidis serogroup B invasive strains: Diversity of vaccine antigen types, Brazil, 2016-2018.
PLoS One. 2020;15:e0243375.
PubMed Abstract available

YE J, Li J
First proteomic analysis of the role of lysine acetylation in extensive functions in Solenopsis invicta.
PLoS One. 2020;15:e0243787.
PubMed Abstract available

MILLS C, Muruganujan A, Ebert D, Marconett CN, et al
PEREGRINE: A genome-wide prediction of enhancer to gene relationships supported by experimental evidence.
PLoS One. 2020;15:e0243791.
PubMed Abstract available

LENZ M, Schulz A, Koeck T, Rapp S, et al
Missing value imputation in proximity extension assay-based targeted proteomics data.
PLoS One. 2020;15:e0243487.
PubMed Abstract available

LUCIDARME J, Zhu B, Xu L, Bai X, et al
Genomic analysis of the meningococcal ST-4821 complex-Western clade, potential sexual transmission and predicted antibiotic susceptibility and vaccine coverage.
PLoS One. 2020;15:e0243426.
PubMed Abstract available

MAO Y, Zhao Y, Zhang Y, Yang H, et al
In-depth characterization and comparison of the N-glycosylated proteome of two-dimensional- and three-dimensional-cultured breast cancer cells and xenografted tumors.
PLoS One. 2020;15:e0243789.
PubMed Abstract available

ZANDONADI FS, Ferreira SP, Alexandrino AV, Carnielli CM, et al
Periplasm-enriched fractions from Xanthomonas citri subsp. citri type A and X. fuscans subsp. aurantifolii type B present distinct proteomic profiles under in vitro pathogenicity induction.
PLoS One. 2020;15:e0243867.
PubMed Abstract available

FOPA FOMEJU B, Brunel D, Berard A, Rivoal JB, et al
Quick and efficient approach to develop genomic resources in orphan species: Application in Lavandula angustifolia.
PLoS One. 2020;15:e0243853.
PubMed Abstract available

JITTIKOON J, Sangroongruangsri S, Thavorncharoensap M, Chitpim N, et al
Economic impact of medical genetic testing on clinical applications in Thailand.
PLoS One. 2020;15:e0243934.
PubMed Abstract available

BREIDENBACH N, Gailing O, Krutovsky KV
Genetic structure of coast redwood (Sequoia sempervirens [D. Don] Endl.) populations in and outside of the natural distribution range based on nuclear and chloroplast microsatellite markers.
PLoS One. 2020;15:e0243556.
PubMed Abstract available

LARSSON M, Rudqvist N, Spetz J, Shubbar E, et al
Long-term transcriptomic and proteomic effects in Sprague Dawley rat thyroid and plasma after internal low dose 131I exposure.
PLoS One. 2020;15:e0244098.
PubMed Abstract available

MENIKOU S, McArdle AJ, Li MS, Kaforou M, et al
A proteomics-based method for identifying antigens within immune complexes.
PLoS One. 2020;15:e0244157.
PubMed Abstract available

VIANA MVC, Profeta R, da Silva AL, Hurtado R, et al
Taxonomic classification of strain PO100/5 shows a broader geographic distribution and genetic markers of the recently described Corynebacterium silvaticum.
PLoS One. 2020;15:e0244210.
PubMed Abstract available

GUEVARA EK, Palo JU, Oversti S, King JL, et al
Genetic assessment reveals no population substructure and divergent regional and sex-specific histories in the Chachapoyas from northeast Peru.
PLoS One. 2020;15:e0244497.
PubMed Abstract available

WANG J, Ran LL, Li Y, Liu YH, et al
Comparative proteomics provides insights into diapause program of Bactrocera minax (Diptera: Tephritidae).
PLoS One. 2020;15:e0244493.
PubMed Abstract available

LASO-JADART R, Ambroise C, Peterlongo P, Madoui MA, et al
metaVaR: Introducing metavariant species models for reference-free metagenomic-based population genomics.
PLoS One. 2020;15:e0244637.
PubMed Abstract available

VON MAYDELL D, Lehnert H, Berner T, Klocke E, et al
On genetic diversity in caraway: Genotyping of a large germplasm collection.
PLoS One. 2020;15:e0244666.
PubMed Abstract available

HULL JJA, Qi M, Montmayeur AM, Kumar D, et al
Metagenomic sequencing generates the whole genomes of porcine rotavirus A, C, and H from the United States.
PLoS One. 2020;15:e0244498.
PubMed Abstract available

VILLATORO AJ, Alcoholado C, Martin-Astorga MDC, Rico G, et al
Characterization of the secretory profile and exosomes of limbal stem cells in the canine species.
PLoS One. 2020;15:e0244327.
PubMed Abstract available

OYAMA Y, Shuff S, Davizon-Castillo P, Clendenen N, et al
Intense light as anticoagulant therapy in humans.
PLoS One. 2020;15:e0244792.
PubMed Abstract available

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