Author: Magnus Rattray

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Preprints

Longitudinal immune profiling reveals distinct features of COVID-19 pathogenesis

• Downloaded 3,041 times
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  • Site-wide: 6,228
  • In infectious diseases: 1,164
• Year to date:
  • Site-wide: 49,416
• Since beginning of last month:
  • Site-wide: 30,372

Classifying cells with Scasat - a tool to analyse single-cell ATAC-seq

• Downloaded 1,787 times
• Download rankings, all-time:
  • Site-wide: 13,576
  • In bioinformatics: 1,395
• Year to date:
  • Site-wide: 157,579
• Since beginning of last month:
  • Site-wide: 162,433

HiChIP-Peaks: A HiChIP peak calling algorithm

• Downloaded 1,488 times
• Download rankings, all-time:
  • Site-wide: 17,898
  • In bioinformatics: 1,878
• Year to date:
  • Site-wide: 131,510
• Since beginning of last month:
  • Site-wide: 163,662

Non-parametric modelling of temporal and spatial counts data from RNA-seq experiments

• Downloaded 1,319 times
• Download rankings, all-time:
  • Site-wide: 21,525
  • In bioinformatics: 2,332
• Year to date:
  • Site-wide: 48,893
• Since beginning of last month:
  • Site-wide: 72,792

Analysis of chromatin organization and gene expression in T cells identifies functional genes for rheumatoid arthritis

• Downloaded 1,236 times
• Download rankings, all-time:
  • Site-wide: 23,859
  • In genomics: 2,046
• Year to date:
  • Site-wide: 95,700
• Since beginning of last month:
  • Site-wide: 123,123

Quantitative single-cell live imaging links HES5 dynamics with cell-state and fate in murine neurogenesis

• Downloaded 1,100 times
• Download rankings, all-time:
  • Site-wide: 28,470
  • In developmental biology: 497
• Year to date:
  • Site-wide: 129,591
• Since beginning of last month:
  • Site-wide: 131,908

GrandPrix: Scaling up the Bayesian GPLVM for single-cell data

• Downloaded 1,098 times
• Download rankings, all-time:
  • Site-wide: 28,557
  • In bioinformatics: 2,966
• Year to date:
  • Site-wide: 119,149
• Since beginning of last month:
  • Site-wide: 131,773

BGP: Branched Gaussian processes for identifying gene-specific branching dynamics in single cell data

• Downloaded 1,088 times
• Download rankings, all-time:
  • Site-wide: 28,969
  • In bioinformatics: 3,004
• Year to date:
  • Site-wide: 143,333
• Since beginning of last month:
  • Site-wide: 169,881

Modulation of the promoter activation rate dictates the transcriptional response to graded BMP signaling levels in the Drosophila embryo

• Downloaded 1,085 times
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  • Site-wide: 29,104
  • In developmental biology: 513
• Year to date:
  • Site-wide: 121,135
• Since beginning of last month:
  • Site-wide: 155,905

Uncovering tissue-specific binding features from differential deep learning

• Downloaded 1,022 times
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  • Site-wide: 31,749
  • In bioinformatics: 3,336
• Year to date:
  • Site-wide: 119,764
• Since beginning of last month:
  • Site-wide: 103,388

Inferring kinetic parameters of oscillatory gene regulation from single cell time series data

• Downloaded 516 times
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  • Site-wide: 80,858
  • In developmental biology: 2,087
• Year to date:
  • Site-wide: 72,082
• Since beginning of last month:
  • Site-wide: 58,097

Modelling global mRNA dynamics during Drosophila embryogenesis reveals a relationship between mRNA degradation and P-bodies

• Downloaded 510 times
• Download rankings, all-time:
  • Site-wide: 82,113
  • In developmental biology: None
• Year to date:
  • Site-wide: 3,525
• Since beginning of last month:
  • Site-wide: 1,942

An active chromatin interactome in relevant cell lines elucidates biological mechanisms at genetic risk loci for dermatological traits

• Downloaded 493 times
• Download rankings, all-time:
  • Site-wide: 85,412
  • In genomics: 5,348
• Year to date:
  • Site-wide: 128,583
• Since beginning of last month:
  • Site-wide: 139,925

OscoNet: Inferring oscillatory gene networks

• Downloaded 469 times
• Download rankings, all-time:
  • Site-wide: 90,085
  • In bioinformatics: 7,757
• Year to date:
  • Site-wide: 137,603
• Since beginning of last month:
  • Site-wide: 131,545

HOX paralogs selectively convert binding of ubiquitous transcription factors into tissue-specific patterns of enhancer activation

• Downloaded 429 times
• Download rankings, all-time:
  • Site-wide: 98,937
  • In developmental biology: 2,551
• Year to date:
  • Site-wide: 145,308
• Since beginning of last month:
  • Site-wide: 83,295

Sex differences in innate anti-viral immune responses to respiratory viruses

• Downloaded 427 times
• Download rankings, all-time:
  • Site-wide: 99,423
  • In respiratory medicine: 205
• Year to date:
  • Site-wide: 98,397
• Since beginning of last month:
  • Site-wide: 89,678

Scalable inference of transcriptional kinetic parameters from MS2 time series data

• Downloaded 349 times
• Download rankings, all-time:
  • Site-wide: 119,120
  • In bioinformatics: 9,458
• Year to date:
  • Site-wide: 126,178
• Since beginning of last month:
  • Site-wide: 175,284

Timing of neurogenesis through sequential accumulation of miR-9 due to additive expression of multiple alleles

• Downloaded 323 times
• Download rankings, all-time:
  • Site-wide: 126,299
  • In developmental biology: 3,899
• Year to date:
  • Site-wide: 33,895
• Since beginning of last month:
  • Site-wide: 54,277

Distinct cohorts of Aspergillus fumigatus transcription factors are required for epithelial damage occurring via contact- or soluble effector-mediated mechanisms

• Downloaded 77 times
• Download rankings, all-time:
  • Site-wide: 183,949
  • In microbiology: None
• Year to date:
  • Site-wide: 42,269
• Since beginning of last month:
  • Site-wide: 9,092