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Articles published in PLoS Comput Biol

Retrieve available abstracts of 65 articles:
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    September 2021
  1. HANSEN BC, Greene MR, Field DJ
    Dynamic Electrode-to-Image (DETI) mapping reveals the human brain's spatiotemporal code of visual information.
    PLoS Comput Biol. 2021;17:e1009456.
    PubMed     Abstract available


    August 2021
  2. LEBEL P, Dial R, Vemuri VNP, Garcia V, et al
    Label-free imaging and classification of live P. falciparum enables high performance parasitemia quantification without fixation or staining.
    PLoS Comput Biol. 2021;17:e1009257.
    PubMed     Abstract available


  3. DWIVEDI K, Bonner MF, Cichy RM, Roig G, et al
    Unveiling functions of the visual cortex using task-specific deep neural networks.
    PLoS Comput Biol. 2021;17:e1009267.
    PubMed     Abstract available


  4. SCHINDLER D, Moldenhawer T, Stange M, Lepro V, et al
    Analysis of protrusion dynamics in amoeboid cell motility by means of regularized contour flows.
    PLoS Comput Biol. 2021;17:e1009268.
    PubMed     Abstract available


  5. SCHAWORONKOW N, Voytek B
    Enhancing oscillations in intracranial electrophysiological recordings with data-driven spatial filters.
    PLoS Comput Biol. 2021;17:e1009298.
    PubMed     Abstract available


  6. CHIZHOV AV, Graham LJ
    A strategy for mapping biophysical to abstract neuronal network models applied to primary visual cortex.
    PLoS Comput Biol. 2021;17:e1009007.
    PubMed     Abstract available


  7. TU Y, Ta D, Lu ZL, Wang Y, et al
    Topology-preserving smoothing of retinotopic maps.
    PLoS Comput Biol. 2021;17:e1009216.
    PubMed     Abstract available


    July 2021
  8. HASHEMI M, Vattikonda AN, Sip V, Diaz-Pier S, et al
    On the influence of prior information evaluated by fully Bayesian criteria in a personalized whole-brain model of epilepsy spread.
    PLoS Comput Biol. 2021;17:e1009129.
    PubMed     Abstract available


  9. KOIDE H, Kodera N, Bisht S, Takada S, et al
    Modeling of DNA binding to the condensin hinge domain using molecular dynamics simulations guided by atomic force microscopy.
    PLoS Comput Biol. 2021;17:e1009265.
    PubMed     Abstract available


  10. KINGSLEY JL, Costello JR, Raghunand N, Rejniak KA, et al
    Bridging cell-scale simulations and radiologic images to explain short-time intratumoral oxygen fluctuations.
    PLoS Comput Biol. 2021;17:e1009206.
    PubMed     Abstract available


  11. NIINA T, Matsunaga Y, Takada S
    Rigid-body fitting to atomic force microscopy images for inferring probe shape and biomolecular structure.
    PLoS Comput Biol. 2021;17:e1009215.
    PubMed     Abstract available


  12. HANUSSEK M, Bartusch F, Kruger J
    Performance and scaling behavior of bioinformatic applications in virtualization environments to create awareness for the efficient use of compute resources.
    PLoS Comput Biol. 2021;17:e1009244.
    PubMed     Abstract available


  13. WANG Z, Ding Y, Satta S, Roustaei M, et al
    A hybrid of light-field and light-sheet imaging to study myocardial function and intracardiac blood flow during zebrafish development.
    PLoS Comput Biol. 2021;17:e1009175.
    PubMed     Abstract available


  14. SANZ PERL Y, Pallavicini C, Perez Ipina I, Demertzi A, et al
    Perturbations in dynamical models of whole-brain activity dissociate between the level and stability of consciousness.
    PLoS Comput Biol. 2021;17:e1009139.
    PubMed     Abstract available


  15. WEINSTEIN BG, Graves SJ, Marconi S, Singh A, et al
    A benchmark dataset for canopy crown detection and delineation in co-registered airborne RGB, LiDAR and hyperspectral imagery from the National Ecological Observation Network.
    PLoS Comput Biol. 2021;17:e1009180.
    PubMed     Abstract available


    June 2021
  16. BAUER A, Prechova M, Fischer L, Thievessen I, et al
    pyTFM: A tool for traction force and monolayer stress microscopy.
    PLoS Comput Biol. 2021;17:e1008364.
    PubMed     Abstract available


  17. TRENTHAM-DIETZ A, Alagoz O, Chapman C, Huang X, et al
    Reflecting on 20 years of breast cancer modeling in CISNET: Recommendations for future cancer systems modeling efforts.
    PLoS Comput Biol. 2021;17:e1009020.
    PubMed     Abstract available


  18. RICHIE-HALFORD A, Yeatman JD, Simon N, Rokem A, et al
    Multidimensional analysis and detection of informative features in human brain white matter.
    PLoS Comput Biol. 2021;17:e1009136.
    PubMed     Abstract available


  19. NISHIDA S, Blanc A, Maeda N, Kado M, et al
    Behavioral correlates of cortical semantic representations modeled by word vectors.
    PLoS Comput Biol. 2021;17:e1009138.
    PubMed     Abstract available


    May 2021
  20. KALM K, Norris D
    Sequence learning recodes cortical representations instead of strengthening initial ones.
    PLoS Comput Biol. 2021;17:e1008969.
    PubMed     Abstract available


  21. ARTHURS CJ, Khlebnikov R, Melville A, Marcan M, et al
    CRIMSON: An open-source software framework for cardiovascular integrated modelling and simulation.
    PLoS Comput Biol. 2021;17:e1008881.
    PubMed     Abstract available


  22. MENSCH A, Mairal J, Thirion B, Varoquaux G, et al
    Extracting representations of cognition across neuroimaging studies improves brain decoding.
    PLoS Comput Biol. 2021;17:e1008795.
    PubMed     Abstract available


  23. SIMIONATO G, Hinkelmann K, Chachanidze R, Bianchi P, et al
    Red blood cell phenotyping from 3D confocal images using artificial neural networks.
    PLoS Comput Biol. 2021;17:e1008934.
    PubMed     Abstract available


  24. PEDERSEN ML, Ironside M, Amemori KI, McGrath CL, et al
    Computational phenotyping of brain-behavior dynamics underlying approach-avoidance conflict in major depressive disorder.
    PLoS Comput Biol. 2021;17:e1008955.
    PubMed     Abstract available


    April 2021
  25. PARIZ A, Fischer I, Valizadeh A, Mirasso C, et al
    Transmission delays and frequency detuning can regulate information flow between brain regions.
    PLoS Comput Biol. 2021;17:e1008129.
    PubMed     Abstract available


  26. CAI C, Friedrich J, Singh A, Eybposh MH, et al
    VolPy: Automated and scalable analysis pipelines for voltage imaging datasets.
    PLoS Comput Biol. 2021;17:e1008806.
    PubMed     Abstract available


  27. KAJIWARA M, Nomura R, Goetze F, Kawabata M, et al
    Inhibitory neurons exhibit high controlling ability in the cortical microconnectome.
    PLoS Comput Biol. 2021;17:e1008846.
    PubMed     Abstract available


    March 2021
  28. VEITH I, Mencattini A, Picant V, Serra M, et al
    Apoptosis mapping in space and time of 3D tumor ecosystems reveals transmissibility of cytotoxic cancer death.
    PLoS Comput Biol. 2021;17:e1008870.
    PubMed     Abstract available


  29. LIN YE, Shnitzer T, Talmon R, Villarroel-Espindola F, et al
    Graph of graphs analysis for multiplexed data with application to imaging mass cytometry.
    PLoS Comput Biol. 2021;17:e1008741.
    PubMed     Abstract available


  30. AL-TAHAN H, Mohsenzadeh Y
    Reconstructing feedback representations in the ventral visual pathway with a generative adversarial autoencoder.
    PLoS Comput Biol. 2021;17:e1008775.
    PubMed     Abstract available


  31. RASERO J, Sentis AI, Yeh FC, Verstynen T, et al
    Integrating across neuroimaging modalities boosts prediction accuracy of cognitive ability.
    PLoS Comput Biol. 2021;17:e1008347.
    PubMed     Abstract available


    February 2021
  32. SIP V, Hashemi M, Vattikonda AN, Woodman MM, et al
    Data-driven method to infer the seizure propagation patterns in an epileptic brain from intracranial electroencephalography.
    PLoS Comput Biol. 2021;17:e1008689.
    PubMed     Abstract available


  33. CORONEL-OLIVEROS C, Cofre R, Orio P
    Cholinergic neuromodulation of inhibitory interneurons facilitates functional integration in whole-brain models.
    PLoS Comput Biol. 2021;17:e1008737.
    PubMed     Abstract available


  34. MERGENTHALER P, Hariharan S, Pemberton JM, Lourenco C, et al
    Rapid 3D phenotypic analysis of neurons and organoids using data-driven cell segmentation-free machine learning.
    PLoS Comput Biol. 2021;17:e1008630.
    PubMed     Abstract available


  35. GALLOIS B, Candelier R
    FastTrack: An open-source software for tracking varying numbers of deformable objects.
    PLoS Comput Biol. 2021;17:e1008697.
    PubMed     Abstract available


  36. GERSHMAN SJ, Guitart-Masip M, Cavanagh JF
    Neural signatures of arbitration between Pavlovian and instrumental action selection.
    PLoS Comput Biol. 2021;17:e1008553.
    PubMed     Abstract available


  37. KATAHIRA K, Toyama A
    Revisiting the importance of model fitting for model-based fMRI: It does matter in computational psychiatry.
    PLoS Comput Biol. 2021;17:e1008738.
    PubMed     Abstract available


  38. NOTERMANS T, Tanska P, Korhonen RK, Khayyeri H, et al
    A numerical framework for mechano-regulated tendon healing-Simulation of early regeneration of the Achilles tendon.
    PLoS Comput Biol. 2021;17:e1008636.
    PubMed     Abstract available


  39. SEELIGER K, Ambrogioni L, Gucluturk Y, van den Bulk LM, et al
    End-to-end neural system identification with neural information flow.
    PLoS Comput Biol. 2021;17:e1008558.
    PubMed     Abstract available


  40. KUMAR MG, Hu M, Ramanujan A, Sur M, et al
    Functional parcellation of mouse visual cortex using statistical techniques reveals response-dependent clustering of cortical processing areas.
    PLoS Comput Biol. 2021;17:e1008548.
    PubMed     Abstract available


  41. SCHNECKENREITHER G, Tschandl P, Rippinger C, Sinz C, et al
    Reproduction of patterns in melanocytic proliferations by agent-based simulation and geometric modeling.
    PLoS Comput Biol. 2021;17:e1008660.
    PubMed     Abstract available


    January 2021
  42. HARTUNG G, Badr S, Moeini M, Lesage F, et al
    Voxelized simulation of cerebral oxygen perfusion elucidates hypoxia in aged mouse cortex.
    PLoS Comput Biol. 2021;17:e1008584.
    PubMed     Abstract available


  43. FRIEDRICH J, Giovannucci A, Pnevmatikakis EA
    Online analysis of microendoscopic 1-photon calcium imaging data streams.
    PLoS Comput Biol. 2021;17:e1008565.
    PubMed     Abstract available


  44. AQIL M, Atasoy S, Kringelbach ML, Hindriks R, et al
    Graph neural fields: A framework for spatiotemporal dynamical models on the human connectome.
    PLoS Comput Biol. 2021;17:e1008310.
    PubMed     Abstract available


    December 2020
  45. LACHANCE J, Cohen DJ
    Practical fluorescence reconstruction microscopy for large samples and low-magnification imaging.
    PLoS Comput Biol. 2020;16:e1008443.
    PubMed     Abstract available


  46. FENYVES BG, Szilagyi GS, Vassy Z, Soti C, et al
    Synaptic polarity and sign-balance prediction using gene expression data in the Caenorhabditis elegans chemical synapse neuronal connectome network.
    PLoS Comput Biol. 2020;16:e1007974.
    PubMed     Abstract available


  47. NINO DF, Djayakarsana D, Milstein JN
    FOCAL3D: A 3-dimensional clustering package for single-molecule localization microscopy.
    PLoS Comput Biol. 2020;16:e1008479.
    PubMed     Abstract available


  48. KUMAR S, Ellis CT, O'Connell TP, Chun MM, et al
    Searching through functional space reveals distributed visual, auditory, and semantic coding in the human brain.
    PLoS Comput Biol. 2020;16:e1008457.
    PubMed     Abstract available


  49. FAGERHOLM ED, Tangwiriyasakul C, Friston KJ, Violante IR, et al
    Neural diffusivity and pre-emptive epileptic seizure intervention.
    PLoS Comput Biol. 2020;16:e1008448.
    PubMed     Abstract available


    November 2020
  50. LI B, Yang YT, Capra JA, Gerstein MB, et al
    Predicting changes in protein thermodynamic stability upon point mutation with deep 3D convolutional neural networks.
    PLoS Comput Biol. 2020;16:e1008291.
    PubMed     Abstract available


  51. DAI K, Gratiy SL, Billeh YN, Xu R, et al
    Brain Modeling ToolKit: An open source software suite for multiscale modeling of brain circuits.
    PLoS Comput Biol. 2020;16:e1008386.
    PubMed     Abstract available


  52. AMYOT R, Flechsig H
    BioAFMviewer: An interactive interface for simulated AFM scanning of biomolecular structures and dynamics.
    PLoS Comput Biol. 2020;16:e1008444.
    PubMed     Abstract available


  53. MA J, Do M, Le Gros MA, Peskin CS, et al
    Strong intracellular signal inactivation produces sharper and more robust signaling from cell membrane to nucleus.
    PLoS Comput Biol. 2020;16:e1008356.
    PubMed     Abstract available


    October 2020
  54. CORDIDO A, Cernadas E, Fernandez-Delgado M, Garcia-Gonzalez MA, et al
    CystAnalyser: A new software tool for the automatic detection and quantification of cysts in Polycystic Kidney and Liver Disease, and other cystic disorders.
    PLoS Comput Biol. 2020;16:e1008337.
    PubMed     Abstract available


  55. MUNOZ-AGUIRRE M, Ntasis VF, Rojas S, Guigo R, et al
    PyHIST: A Histological Image Segmentation Tool.
    PLoS Comput Biol. 2020;16:e1008349.
    PubMed     Abstract available


  56. BEUL SF, Hilgetag CC
    Systematic modelling of the development of laminar projection origins in the cerebral cortex: Interactions of spatio-temporal patterns of neurogenesis and cellular heterogeneity.
    PLoS Comput Biol. 2020;16:e1007991.
    PubMed     Abstract available


    September 2020
  57. XU M, Wang Z, Zhang H, Pantazis D, et al
    A new Graph Gaussian embedding method for analyzing the effects of cognitive training.
    PLoS Comput Biol. 2020;16:e1008186.
    PubMed     Abstract available


  58. WEI Z, Lin BJ, Chen TW, Daie K, et al
    A comparison of neuronal population dynamics measured with calcium imaging and electrophysiology.
    PLoS Comput Biol. 2020;16:e1008198.
    PubMed     Abstract available


  59. YANG L, Ghosh RP, Franklin JM, Chen S, et al
    NuSeT: A deep learning tool for reliably separating and analyzing crowded cells.
    PLoS Comput Biol. 2020;16:e1008193.
    PubMed     Abstract available


  60. KORFHAGE N, Muhling M, Ringshandl S, Becker A, et al
    Detection and segmentation of morphologically complex eukaryotic cells in fluorescence microscopy images via feature pyramid fusion.
    PLoS Comput Biol. 2020;16:e1008179.
    PubMed     Abstract available


  61. ROY A, Varela M, Chubb H, MacLeod R, et al
    Identifying locations of re-entrant drivers from patient-specific distribution of fibrosis in the left atrium.
    PLoS Comput Biol. 2020;16:e1008086.
    PubMed     Abstract available


  62. PAPADOPOULOS L, Lynn CW, Battaglia D, Bassett DS, et al
    Relations between large-scale brain connectivity and effects of regional stimulation depend on collective dynamical state.
    PLoS Comput Biol. 2020;16:e1008144.
    PubMed     Abstract available


    June 2020
  63. MAYR S, Hauser F, Puthukodan S, Axmann M, et al
    Statistical analysis of 3D localisation microscopy images for quantification of membrane protein distributions in a platelet clot model.
    PLoS Comput Biol. 2020;16:e1007902.
    PubMed     Abstract available


  64. KONRATH F, Mittermeier A, Cristiano E, Wolf J, et al
    A systematic approach to decipher crosstalk in the p53 signaling pathway using single cell dynamics.
    PLoS Comput Biol. 2020;16:e1007901.
    PubMed     Abstract available


  65. LERMA-USABIAGA G, Benson N, Winawer J, Wandell BA, et al
    A validation framework for neuroimaging software: The case of population receptive fields.
    PLoS Comput Biol. 2020;16:e1007924.
    PubMed     Abstract available


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