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Hanzi Hunter — ultra-fast Hanzi study

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Articles published in Proc Natl Acad Sci U S A

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Single Articles


    November 2025
  1. KOLBE JJ, Giery ST, Petherick AS, Losos JB, et al
    Morphological and genomic responses to hurricanes arise and persist during a biological invasion.
    Proc Natl Acad Sci U S A. 2025;122:e2517322122.
    PubMed     Abstract available


  2. PASCHOU C, Apokotou O, Charmpi K, Kollias A, et al
    Dysregulated proteostasis in p.A53T-alpha-Synuclein astrocytes aggravates Lewy-like neuropathology in a Parkinson's disease iPSC model.
    Proc Natl Acad Sci U S A. 2025;122:e2505240122.
    PubMed     Abstract available


  3. MERRION HG, Barber CN, Renuse S, Cutler J, et al
    Dynamic extracellular interactions with AMPA receptors.
    Proc Natl Acad Sci U S A. 2025;122:e2517436122.
    PubMed     Abstract available


  4. GOLDEN SS, DeRosier DJ, Dahlberg JE, Sherman LA, et al
    Robert Haselkorn (1934-2025): Pioneer in molecular biology and microbiology.
    Proc Natl Acad Sci U S A. 2025;122:e2522224122.
    PubMed     Abstract available


  5. MATSUMOTO C, Takahashi KK, Iwatsuki M, Yasuda-Yoshihara N, et al
    Genomic and transcriptomic landscape of carcinogenesis in patients with gastric adenocarcinoma and proximal polyposis of the stomach (GAPPS).
    Proc Natl Acad Sci U S A. 2025;122:e2427133122.
    PubMed     Abstract available


    October 2025
  6. HATFULL GF
    All the world's a phage.
    Proc Natl Acad Sci U S A. 2025;122:e2523344122.
    PubMed     Abstract available


  7. TESNIERE C, Boudghene-Stambouli F, Severin M, Poet M, et al
    Intracellular pH regulates ubiquitin-mediated degradation of the MAP kinase ERK3.
    Proc Natl Acad Sci U S A. 2025;122:e2501825122.
    PubMed     Abstract available


  8. SCHWEIZER RM, Grummer JA, Tobin KB, Corpuz R, et al
    Museum genomics suggests long-term population decline in a putatively extinct bumble bee.
    Proc Natl Acad Sci U S A. 2025;122:e2509749122.
    PubMed     Abstract available


  9. JANG E, Ghaffari S, Henry A, Wen G, et al
    Lipid raft proteomics identify endothelial myosin-9 (MYH9) as a regulator of low-density lipoprotein transcytosis and atherosclerosis.
    Proc Natl Acad Sci U S A. 2025;122:e2509315122.
    PubMed     Abstract available


  10. PIERCE MP, Worthington BM, Han S, Ni XB, et al
    Phylogenomics redefines the evolutionary history of mosquitoes.
    Proc Natl Acad Sci U S A. 2025;122:e2519291122.
    PubMed     Abstract available


  11. PENG Z, Fan J, Liu Y, Jia Q, et al
    Uncovering cargo clients and accessory factors of AP-1 and AP-4 through vesicle proteomics.
    Proc Natl Acad Sci U S A. 2025;122:e2508961122.
    PubMed     Abstract available


    September 2025
  12. LANGLOIS RA, Casanova JL
    The potential impacts of human genetics on virus emergence.
    Proc Natl Acad Sci U S A. 2025;122:e2504318122.
    PubMed     Abstract available


  13. PELOSI JA, Davenport R, Kuo LY, Gray LN, et al
    The genome of the vining fern Lygodium microphyllum highlights genomic and functional differences between life phases of an invasive plant.
    Proc Natl Acad Sci U S A. 2025;122:e2504773122.
    PubMed     Abstract available


  14. SNOW M, Searcy MT, Summers R, Blohm T, et al
    A reanalysis of population dynamics in the Casas Grandes region of Northern Mexico using mitochondrial DNA.
    Proc Natl Acad Sci U S A. 2025;122:e2506162122.
    PubMed     Abstract available


  15. BENTLEY K, Statkute E, Murrell I, Fielding CA, et al
    Virion proteomics of genetically intact HCMV reveals a regulator of envelope glycoprotein composition that protects against humoral immunity.
    Proc Natl Acad Sci U S A. 2025;122:e2425622122.
    PubMed     Abstract available


    August 2025
  16. XIE T, Lin D, Cai XD, Ma LJ, et al
    Nano-biochar regulates phage-host interactions, reducing antibiotic resistance genes in vermicomposting systems.
    Proc Natl Acad Sci U S A. 2025;122:e2511986122.
    PubMed     Abstract available


  17. IZQUIERDO-ARANEGA G, Cuevas-Caballe C, Giannelli F, Paris JR, et al
    Pervasive and recurrent hybridization prevents inbreeding in Europe's most threatened seabird.
    Proc Natl Acad Sci U S A. 2025;122:e2427223122.
    PubMed     Abstract available


  18. GUJRAL O, Bafna M, Alm E, Berger B, et al
    Sparse autoencoders uncover biologically interpretable features in protein language model representations.
    Proc Natl Acad Sci U S A. 2025;122:e2506316122.
    PubMed     Abstract available


  19. LYU L, Gill M, Stott G, Subedi S, et al
    Tracing SARS-CoV-2 clusters across local scales using genomic data.
    Proc Natl Acad Sci U S A. 2025;122:e2501435122.
    PubMed     Abstract available


  20. ZHOU N, Zhang Y, Chen PR, Fan X, et al
    Time-resolved photocatalytic proximity labeling uncovers ER proteome dynamics underlying UPR-to-apoptosis transition.
    Proc Natl Acad Sci U S A. 2025;122:e2503115122.
    PubMed     Abstract available


  21. WANG H, Nielsen J, Zhou YJ, Lu H, et al
    Yeast adapts to diverse ecological niches driven by genomics and metabolic reprogramming.
    Proc Natl Acad Sci U S A. 2025;122:e2502044122.
    PubMed     Abstract available


  22. LASO-JADART R, Corrigan SL, Yang L, Lee SH, et al
    A genomic test of sex-biased dispersal in white sharks.
    Proc Natl Acad Sci U S A. 2025;122:e2507931122.
    PubMed     Abstract available


  23. VAN DER HEIJDEN ESM, Nasvall K, Seixas FA, Beserra Nobre CE, et al
    Genomics of Neotropical biodiversity indicators: Two butterfly radiations with rampant chromosomal rearrangements and hybridization.
    Proc Natl Acad Sci U S A. 2025;122:e2410939122.
    PubMed     Abstract available


  24. LEWANSKI AL, Linderoth T, Thompson G, Tringali A, et al
    Translocations contribute to population rescue in an imperiled woodpecker.
    Proc Natl Acad Sci U S A. 2025;122:e2410946122.
    PubMed     Abstract available


  25. MUIRHEAD CA, Marti E, Shogren EH, Uy JAC, et al
    Genomic origins and evolution of neo-sex chromosomes in Pacific Island birds.
    Proc Natl Acad Sci U S A. 2025;122:e2503746122.
    PubMed     Abstract available


    July 2025
  26. LIU Y, Sarker AHMR, Sripa B, Tangkawattana S, et al
    A population genetic analysis of the nematode Strongyloides stercoralis in Asia shows that human infection is not a zoonosis from dogs.
    Proc Natl Acad Sci U S A. 2025;122:e2424630122.
    PubMed     Abstract available


  27. PEHIM LIMBU S, Sturmer SL, Zahn G, Aguilar-Trigueros CA, et al
    Climate-linked biogeography of mycorrhizal fungal spore traits.
    Proc Natl Acad Sci U S A. 2025;122:e2505059122.
    PubMed     Abstract available


  28. VASUDEVAN HN, Arang N, Sacconi Nunez M, Kennedy P, et al
    A transcriptomic, proteomic, and functional genetic atlas dissects neurofibromin function in the peripheral nervous system.
    Proc Natl Acad Sci U S A. 2025;122:e2506823122.
    PubMed     Abstract available


  29. JIANG Y, Liu Q, Stridh P, Kockum I, et al
    Multiomics integration prioritizes potential drug targets for multiple sclerosis.
    Proc Natl Acad Sci U S A. 2025;122:e2425537122.
    PubMed     Abstract available


  30. DELLICOUR S, Gambaro F, Jacquot M, Lequime S, et al
    Comparative performance of viral landscape phylogeography approaches.
    Proc Natl Acad Sci U S A. 2025;122:e2506743122.
    PubMed     Abstract available


  31. SLAVOV GT, Macaya-Sanz D, DiFazio SP, Howe GT, et al
    Population structure limits the use of genomic data for predicting phenotypes and managing genetic resources in forest trees.
    Proc Natl Acad Sci U S A. 2025;122:e2425691122.
    PubMed     Abstract available


  32. ANINTA SG, Drinkwater R, Carmagnini A, Deere NJ, et al
    The importance of small-island populations for the long-term survival of endangered large-bodied insular mammals.
    Proc Natl Acad Sci U S A. 2025;122:e2422690122.
    PubMed     Abstract available


    June 2025
  33. ZENG W, Guo H, Liu Q, Wong WH, et al
    Improving polygenic prediction from whole-genome sequencing data by leveraging predicted epigenomic features.
    Proc Natl Acad Sci U S A. 2025;122:e2419202122.
    PubMed     Abstract available


  34. GORELIK A, Paulo JA, Schroeter CB, Lad M, et al
    CRISPR screens and quantitative proteomics reveal remodeling of the aryl hydrocarbon receptor-driven proteome through PARP7 activity.
    Proc Natl Acad Sci U S A. 2025;122:e2424985122.
    PubMed     Abstract available


  35. KUO CL, Liu P, Drouard G, Vuoksimaa E, et al
    A proteomic signature of healthspan.
    Proc Natl Acad Sci U S A. 2025;122:e2414086122.
    PubMed     Abstract available


  36. STEINER MC, Rice DP, Biddanda A, Ianni-Ravn MK, et al
    Study design and the sampling of deleterious rare variants in biobank-scale datasets.
    Proc Natl Acad Sci U S A. 2025;122:e2425196122.
    PubMed     Abstract available


  37. ALVERSON AJ, Roberts WR, Ruck EC, Nakov T, et al
    Phylogenomics reveals the slow-burning fuse of diatom evolution.
    Proc Natl Acad Sci U S A. 2025;122:e2500153122.
    PubMed     Abstract available


    May 2025
  38. YAMASHITA H, Matsumoto T, Kawashima K, Abdulla Daanaa HS, et al
    Dinucleotide preferences underlie apparent codon preference reversals in the Drosophila melanogaster lineage.
    Proc Natl Acad Sci U S A. 2025;122:e2419696122.
    PubMed     Abstract available


  39. MARTIS S, Schwab DJ, GrandPre T
    Trait-space patterning is dictated by the tempo and mode of mutation.
    Proc Natl Acad Sci U S A. 2025;122:e2425607122.
    PubMed     Abstract available


  40. GUSTAVSON DE, Borriello GA, Karhadkar MA, Rhee SH, et al
    Stability of general cognitive ability from infancy to adulthood: A combined twin and genomic investigation.
    Proc Natl Acad Sci U S A. 2025;122:e2426531122.
    PubMed     Abstract available


  41. PEEK J, Bhattacharjee A, Burian J, Hsieh DC, et al
    Environmental resistome-guided development of resistance-tolerant antibiotics.
    Proc Natl Acad Sci U S A. 2025;122:e2504781122.
    PubMed     Abstract available


  42. FRITTS RK, Ebmeier CC, Copley SD
    Transcriptomic and proteomic ramifications of segmental amplification in Escherichia coli.
    Proc Natl Acad Sci U S A. 2025;122:e2422424122.
    PubMed     Abstract available


  43. GUPTA A, Mirarab S, Turakhia Y
    Accurate, scalable, and fully automated inference of species trees from raw genome assemblies using ROADIES.
    Proc Natl Acad Sci U S A. 2025;122:e2500553122.
    PubMed     Abstract available


  44. JO Y, Greene TT, Chiale C, Zhang K, et al
    Genomic analysis of progenitors in viral infection implicates glucocorticoids as suppressors of plasmacytoid dendritic cell generation.
    Proc Natl Acad Sci U S A. 2025;122:e2410092122.
    PubMed     Abstract available


    April 2025
  45. ROSENTHAL JS, Zhang D, Yin J, Long C, et al
    Molecular organization of central cholinergic synapses.
    Proc Natl Acad Sci U S A. 2025;122:e2422173122.
    PubMed     Abstract available


  46. MCDONALD EF, Kim M, Olson JA 3rd, Meiler J, et al
    Proteostasis landscapes of cystic fibrosis variants reveal drug response vulnerability.
    Proc Natl Acad Sci U S A. 2025;122:e2418407122.
    PubMed     Abstract available


  47. HUANG YH, Belk JA, Zhang R, Weiser NE, et al
    Unified molecular approach for spatial epigenome, transcriptome, and cell lineages.
    Proc Natl Acad Sci U S A. 2025;122:e2424070122.
    PubMed     Abstract available


  48. ZHAO X, Liu Y, Yuan B, Cao Z, et al
    Genomic signatures associated with the evolutionary loss of egg yolk in parasitoid wasps.
    Proc Natl Acad Sci U S A. 2025;122:e2422292122.
    PubMed     Abstract available


  49. SIERANT MC, Jin SC, Bilguvar K, Morton SU, et al
    Genomic analysis of 11,555 probands identifies 60 dominant congenital heart disease genes.
    Proc Natl Acad Sci U S A. 2025;122:e2420343122.
    PubMed     Abstract available


    March 2025
  50. BLUMSTEIN M, Webster S, Hopkins R, Basler D, et al
    Genomics highlight an underestimation of phenology sensitivity to the urban heat island effect.
    Proc Natl Acad Sci U S A. 2025;122:e2408564122.
    PubMed     Abstract available


  51. HU Z, Baer A, Hering L, de Sena Oliveira I, et al
    Conserved leucine-rich repeat proteins in the adhesive projectile slime of velvet worms.
    Proc Natl Acad Sci U S A. 2025;122:e2416282122.
    PubMed     Abstract available


  52. ERVEN JAM, Mattiangeli V, Dreshaj M, Mullin VE, et al
    Archaeogenomic insights into commensalism and regional variation in pig management in Neolithic northwest Europe.
    Proc Natl Acad Sci U S A. 2025;122:e2410235122.
    PubMed     Abstract available


  53. HART R, Moran NA, Ochman H
    Genomic divergence across the tree of life.
    Proc Natl Acad Sci U S A. 2025;122:e2319389122.
    PubMed     Abstract available


  54. DICKMANDER RJ, Lenarcic EM, Sears JD, Hale AE, et al
    RNA-targeted proteomics identifies YBX1 as critical for efficient HCMV mRNA translation.
    Proc Natl Acad Sci U S A. 2025;122:e2421155122.
    PubMed     Abstract available


    February 2025
  55. PENG Y, Wang Y, Liu Y, Fang X, et al
    The genomic and epigenomic landscapes of hemizygous genes across crops with contrasting reproductive systems.
    Proc Natl Acad Sci U S A. 2025;122:e2422487122.
    PubMed     Abstract available


    January 2025
  56. NI B, Xiao L, Lin D, Zhang TL, et al
    Increasing pesticide diversity impairs soil microbial functions.
    Proc Natl Acad Sci U S A. 2025;122:e2419917122.
    PubMed     Abstract available


    December 2024
  57. RUPERTI F, Dzieciatkowska M, Pankey MS, Asensio CS, et al
    Proteomic analysis of the sponge Aggregation Factor implicates an ancient toolkit for allorecognition and adhesion in animals.
    Proc Natl Acad Sci U S A. 2024;121:e2409125121.
    PubMed     Abstract available


  58. PURNOMO GA, Kealy S, O'Connor S, Schapper A, et al
    The genetic origins and impacts of historical Papuan migrations into Wallacea.
    Proc Natl Acad Sci U S A. 2024;121:e2412355121.
    PubMed     Abstract available


  59. SRINIVAS P, Peterson SB, Gallagher LA, Wang Y, et al
    Beyond genomics in Patescibacteria: A trove of unexplored biology packed into ultrasmall bacteria.
    Proc Natl Acad Sci U S A. 2024;121:e2419369121.
    PubMed     Abstract available


  60. PRADA F, Haramaty L, Livnah O, Shaul R, et al
    Proteomic characterization of a foraminiferal test's organic matrix.
    Proc Natl Acad Sci U S A. 2024;121:e2417845121.
    PubMed     Abstract available


  61. PADHI C, Field CM, Forneris CC, Olszewski D, et al
    Metagenomic study of lake microbial mats reveals protease-inhibiting antiviral peptides from a core microbiome member.
    Proc Natl Acad Sci U S A. 2024;121:e2409026121.
    PubMed     Abstract available


    November 2024
  62. WAKANO JY, Aoki K
    Forward and backward modeling of cultural evolutionary processes.
    Proc Natl Acad Sci U S A. 2024;121:e2322880121.
    PubMed     Abstract available


  63. STONE L, Lurquin PF
    A tale of two cultures: How L. Luca Cavalli-Sforza bridged the gap between science and the humanities.
    Proc Natl Acad Sci U S A. 2024;121:e2322878121.
    PubMed     Abstract available


  64. ARMSTRONG CG, Clemente-Carvalho RBG, Turner NJ, Wickham S, et al
    Genetic differentiation and precolonial Indigenous cultivation of hazelnut (Corylus cornuta, Betulaceae) in Western North America.
    Proc Natl Acad Sci U S A. 2024;121:e2402304121.
    PubMed     Abstract available


  65. HILLIS AL, Tamir T, Perry GE, Asara JM, et al
    Parallel phosphoproteomics and metabolomics map the global metabolic tyrosine phosphoproteome.
    Proc Natl Acad Sci U S A. 2024;121:e2413837121.
    PubMed     Abstract available


  66. HOU C, Deng J, Wu C, Zhang J, et al
    Ultradeep O-GlcNAc proteomics reveals widespread O-GlcNAcylation on tyrosine residues of proteins.
    Proc Natl Acad Sci U S A. 2024;121:e2409501121.
    PubMed     Abstract available


  67. BASTIDE P, Rocu P, Wirtz J, Hassler GW, et al
    Modeling the velocity of evolving lineages and predicting dispersal patterns.
    Proc Natl Acad Sci U S A. 2024;121:e2411582121.
    PubMed     Abstract available


  68. LIPMAN DJ, Cherry JL, Strain E, Agarwala R, et al
    Genomic perspectives on foodborne illness.
    Proc Natl Acad Sci U S A. 2024;121:e2411894121.
    PubMed     Abstract available


  69. WHEELER HB, Madrigal AA, Chaim IA
    Mapping the future of oxidative RNA damage in neurodegeneration: Rethinking the status quo with new tools.
    Proc Natl Acad Sci U S A. 2024;121:e2317860121.
    PubMed     Abstract available


    October 2024
  70. CHOY MS, Nguyen HT, Kumar GS, Peti W, et al
    A protein phosphatase 1 specific phosphatase targeting peptide (PhosTAP) to identify the PP1 phosphatome.
    Proc Natl Acad Sci U S A. 2024;121:e2415383121.
    PubMed     Abstract available


  71. LIANG K, Zhou L, Lei Q, Ruan T, et al
    Deep silicification-assisted long-term preservation of structural and genomic information across biospecies: From micro to macro.
    Proc Natl Acad Sci U S A. 2024;121:e2408273121.
    PubMed     Abstract available


  72. GAO J, Yang J, Dong H, Tao S, et al
    The origin of methyl group in methanogen-mediated mercury methylation: From the Wolfe cycle.
    Proc Natl Acad Sci U S A. 2024;121:e2416761121.
    PubMed     Abstract available


  73. BONNET T
    Joining forces to push past paradoxes: Combining quantitative genetics and genomics shows evolution hiding in plain sight.
    Proc Natl Acad Sci U S A. 2024;121:e2417220121.
    PubMed    


  74. RYCROFT JA, Giorgio RT, Sargen M, Helaine S, et al
    Tracking the progeny of bacterial persisters using a CRISPR-based genomic recorder.
    Proc Natl Acad Sci U S A. 2024;121:e2405983121.
    PubMed     Abstract available


  75. KOSTER AK, Yarishkin O, Dubin AE, Kefauver JM, et al
    Chemical mapping of the surface interactome of PIEZO1 identifies CADM1 as a modulator of channel inactivation.
    Proc Natl Acad Sci U S A. 2024;121:e2415934121.
    PubMed     Abstract available


  76. WANG Z, Yu H, Bao W, Qu M, et al
    Proteomic and phosphoproteomic landscape of localized prostate cancer unveils distinct molecular subtypes and insights into precision therapeutics.
    Proc Natl Acad Sci U S A. 2024;121:e2402741121.
    PubMed     Abstract available


    September 2024
  77. ARMSTRONG EE, Mooney JA, Solari KA, Kim BY, et al
    Unraveling the genomic diversity and admixture history of captive tigers in the United States.
    Proc Natl Acad Sci U S A. 2024;121:e2402924121.
    PubMed     Abstract available


  78. CLARAMUNT S, Braun EL, Cracraft J, Fjeldsa J, et al
    Calibrating the genomic clock of modern birds using fossils.
    Proc Natl Acad Sci U S A. 2024;121:e2405887121.
    PubMed    


  79. SHUVAEV S, Lachi D, Koulakov A, Zador A, et al
    Encoding innate ability through a genomic bottleneck.
    Proc Natl Acad Sci U S A. 2024;121:e2409160121.
    PubMed     Abstract available


  80. TAIRA M, Ozato K, Harland RM, Moody SA, et al
    Igor B. Dawid (1935-2024): A pioneer of developmental and molecular biology.
    Proc Natl Acad Sci U S A. 2024;121:e2414869121.
    PubMed    


  81. DU JH, Chen T, Gao M, Wang J, et al
    Joint trajectory inference for single-cell genomics using deep learning with a mixture prior.
    Proc Natl Acad Sci U S A. 2024;121:e2316256121.
    PubMed     Abstract available


  82. CAHILL R, Wang Y, Xian RP, Lee AJ, et al
    Unsupervised pattern identification in spatial gene expression atlas reveals mouse brain regions beyond established ontology.
    Proc Natl Acad Sci U S A. 2024;121:e2319804121.
    PubMed     Abstract available


  83. BADONI S, Pasion-Uy EA, Kor S, Kim SR, et al
    Multiomics of a rice population identifies genes and genomic regions that bestow low glycemic index and high protein content.
    Proc Natl Acad Sci U S A. 2024;121:e2410598121.
    PubMed     Abstract available


  84. LAN T, Yang S, Li H, Zhang Y, et al
    Large-scale genome sequencing of giant pandas improves the understanding of population structure and future conservation initiatives.
    Proc Natl Acad Sci U S A. 2024;121:e2406343121.
    PubMed     Abstract available


    August 2024
  85. NUNEZ JG, Paulose J, Mobius W, Beller DA, et al
    Range expansions across landscapes with quenched noise.
    Proc Natl Acad Sci U S A. 2024;121:e2411487121.
    PubMed     Abstract available


  86. RATH SP, Gupta R, Todres E, Wang H, et al
    Mitochondrial genome copy number variation across tissues in mice and humans.
    Proc Natl Acad Sci U S A. 2024;121:e2402291121.
    PubMed     Abstract available


    July 2024
  87. CHEN L, Chen A, Zhang XD, Saenz Robles MT, et al
    Targeted whole-genome recovery of single viral species in a complex environmental sample.
    Proc Natl Acad Sci U S A. 2024;121:e2404727121.
    PubMed     Abstract available


  88. SOUILMI Y, Wasef S, Williams MP, Conroy G, et al
    Ancient genomes reveal over two thousand years of dingo population structure.
    Proc Natl Acad Sci U S A. 2024;121:e2407584121.
    PubMed     Abstract available


  89. BORTEL P, Hagn G, Skos L, Bileck A, et al
    Memory effects of prior subculture may impact the quality of multiomic perturbation profiles.
    Proc Natl Acad Sci U S A. 2024;121:e2313851121.
    PubMed     Abstract available


  90. PETROS BA
    Identifying changes in viral fitness using population genetic structure.
    Proc Natl Acad Sci U S A. 2024;121:e2410274121.
    PubMed    


  91. LYNCH M, Wei W, Ye Z, Pfrender M, et al
    The genome-wide signature of short-term temporal selection.
    Proc Natl Acad Sci U S A. 2024;121:e2307107121.
    PubMed     Abstract available


  92. TRUMPFF C, Monzel AS, Sandi C, Menon V, et al
    Psychosocial experiences are associated with human brain mitochondrial biology.
    Proc Natl Acad Sci U S A. 2024;121:e2317673121.
    PubMed     Abstract available


  93. SASSO S, Saag L, Spros R, Beneker O, et al
    Capturing the fusion of two ancestries and kinship structures in Merovingian Flanders.
    Proc Natl Acad Sci U S A. 2024;121:e2406734121.
    PubMed     Abstract available


    June 2024
  94. SLEDZIESKI S, Kshirsagar M, Baek M, Dodhia R, et al
    Democratizing protein language models with parameter-efficient fine-tuning.
    Proc Natl Acad Sci U S A. 2024;121:e2405840121.
    PubMed     Abstract available


  95. NAM C, Li LY, Yang Q, Ziman B, et al
    A druggable cascade links methionine metabolism to epigenomic reprogramming in squamous cell carcinoma.
    Proc Natl Acad Sci U S A. 2024;121:e2320835121.
    PubMed     Abstract available


  96. YERMAKOVICH D, Andre M, Brucato N, Kariwiga J, et al
    Denisovan admixture facilitated environmental adaptation in Papua New Guinean populations.
    Proc Natl Acad Sci U S A. 2024;121:e2405889121.
    PubMed     Abstract available


  97. DONKER T, Papathanassopoulos A, Ghosh H, Kociurzynski R, et al
    Estimation of SARS-CoV-2 fitness gains from genomic surveillance data without prior lineage classification.
    Proc Natl Acad Sci U S A. 2024;121:e2314262121.
    PubMed     Abstract available


  98. TAN CH, Wang TY, Park H, Lomenick B, et al
    Single-tissue proteomics in Caenorhabditis elegans reveals proteins resident in intestinal lysosome-related organelles.
    Proc Natl Acad Sci U S A. 2024;121:e2322588121.
    PubMed     Abstract available


    May 2024
  99. HUANG S, Ran Q, Li XM, Bao X, et al
    MACSPI enables tissue-selective proteomic and interactomic analyses in multicellular organisms.
    Proc Natl Acad Sci U S A. 2024;121:e2319060121.
    PubMed     Abstract available


  100. TEYSSONNIERE EM, Trebulle P, Muenzner J, Loegler V, et al
    Species-wide quantitative transcriptomes and proteomes reveal distinct genetic control of gene expression variation in yeast.
    Proc Natl Acad Sci U S A. 2024;121:e2319211121.
    PubMed     Abstract available


  101. LAVANCHY E, Weir BS, Goudet J
    Detecting inbreeding depression in structured populations.
    Proc Natl Acad Sci U S A. 2024;121:e2315780121.
    PubMed     Abstract available


  102. KOBAYASHI D, Inoue Y, Suzuki R, Matsuda M, et al
    Identification and epidemiological study of an uncultured flavivirus from ticks using viral metagenomics and pseudoinfectious viral particles.
    Proc Natl Acad Sci U S A. 2024;121:e2319400121.
    PubMed     Abstract available


    April 2024
  103. STRINGER EJ, Gruber B, Sarre SD, Wardle GM, et al
    Boom-bust population dynamics drive rapid genetic change.
    Proc Natl Acad Sci U S A. 2024;121:e2320590121.
    PubMed     Abstract available


  104. JUSTEN HC, Easton WE, Delmore KE
    Mapping seasonal migration in a songbird hybrid zone -- heritability, genetic correlations, and genomic patterns linked to speciation.
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  105. ZHANG J, Cong Q, Shen J, Song L, et al
    What one genus of showy moths can say about migration, adaptation, and wing pattern.
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  106. HOGAN MP, Holding ML, Nystrom GS, Colston TJ, et al
    The genetic regulatory architecture and epigenomic basis for age-related changes in rattlesnake venom.
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    Subgenome-aware analyses reveal the genomic consequences of ancient allopolyploid hybridizations throughout the cotton family.
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  109. LONG BM, Matsuda Y, Moroney JV
    Algal chloroplast pyrenoids: Evidence for convergent evolution.
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    March 2024
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    The evolutionary genomics of adaptation to stress in wild rhizobium bacteria.
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  111. SHEINMAN M, Arndt PF, Massip F
    Modeling the mosaic structure of bacterial genomes to infer their evolutionary history.
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    Cross-pollination in seed-blended refuge and selection for Vip3A resistance in a lepidopteran pest as detected by genomic monitoring.
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    Heritability within groups is uninformative about differences among groups: Cases from behavioral, evolutionary, and statistical genetics.
    Proc Natl Acad Sci U S A. 2024;121:e2319496121.
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  114. GROH JS, Coop G
    The temporal and genomic scale of selection following hybridization.
    Proc Natl Acad Sci U S A. 2024;121:e2309168121.
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  115. BORETTO M, Geurts MH, Gandhi S, Ma Z, et al
    Epidermal growth factor receptor (EGFR) is a target of the tumor-suppressor E3 ligase FBXW7.
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    tRNA epitranscriptome determines pathogenicity of the opportunistic pathogen Pseudomonas aeruginosa.
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    Genomic ancestry and social dynamics of the last hunter-gatherers of Atlantic France.
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    February 2024
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    Comparative chemical genomics in Babesia species identifies the alkaline phosphatase PhoD as a determinant of antiparasitic resistance.
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    A general approach for inferring the ancestry of recent ancestors of an admixed individual.
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    The genome of the black-footed cat: Revealing a rich natural history and urgent conservation priorities for small felids.
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    December 2023
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    Genomic loci influence patterns of structural covariance in the human brain.
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    Inclusion of highly admixed genotypes in grapevine genomic analyses leads to an equivocal reconstruction of its domestication history.
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    November 2023
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    Coupled models of genomic surveillance and evolving pandemics with applications for timely public health interventions.
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    CAMSAP1 role in orchestrating structure and dynamics of manchette microtubule minus-ends impacts male fertility during spermiogenesis.
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    October 2023
  144. BENEGAS G, Batra SS, Song YS
    DNA language models are powerful predictors of genome-wide variant effects.
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    Functional genomic diversity is correlated with neutral genomic diversity in populations of an endangered rattlesnake.
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    September 2023
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    Starting at Go: Protein structure prediction succumbs to machine learning.
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    Environmental fluctuations explain the universal decay of species-abundance correlations with phylogenetic distance.
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    Rationally designed chimeric PI3K-BET bromodomain inhibitors elicit curative responses in MYC-driven lymphoma.
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    August 2023
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    ADAM17 targeting by human cytomegalovirus remodels the cell surface proteome to simultaneously regulate multiple immune pathways.
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    Data-driven large-scale genomic analysis reveals an intricate phylogenetic and functional landscape in J-domain proteins.
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    July 2023
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    Population genomics reveals meiotic recombination in Fusarium oxysporum.
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    Genomic fold of a "naked" ssRNA virus is critical for stability and propagation.
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    June 2023
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    Evolutionarily diverse origins of deformed wing viruses in western honey bees.
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    Unraveling female communication through scent marks in the Norway rat.
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    Improving the use of plant genetic resources to sustain breeding programs' efficiency.
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    March 2023
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    Genes and sites under adaptation at the phylogenetic scale also exhibit adaptation at the population-genetic scale.
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    February 2023
  191. SCHMID C, Schiffels S
    Estimating human mobility in Holocene Western Eurasia with large-scale ancient genomic data.
    Proc Natl Acad Sci U S A. 2023;120:e2218375120.
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