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Author: Mark D Robinson

Rankings

  • All-time downloads: 70,990 (rank: 3,297 )
  • Categories:
    • bioinformatics: 54,053 (rank: 90 )
    • biophysics: 188 (rank: 27,642 (tie) )
    • cancer biology: 1,021 (rank: 14,296 (tie) )
    • cell biology: 725 (rank: 21,800 (tie) )
    • developmental biology: 1,552 (rank: 3,887 (tie) )
    • evolutionary biology: 1,018 (rank: 10,235 (tie) )
    • genetics: 2,409 (rank: 9,966 (tie) )
    • genomics: 3,024 (rank: 10,560 )
    • immunology: 1,523 (rank: 11,728 (tie) )
    • molecular biology: 320 (rank: 29,301 (tie) )
    • neuroscience: 3,777 (rank: 8,666 (tie) )

Downloads per author, site-wide

Preprints

Meta-analysis of (single-cell method) benchmarks reveals the need for extensibility and interoperability

bioinformatics more details view paper

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On the discovery of subpopulation-specific state transitions from multi-sample multi-condition single-cell RNA sequencing data

bioinformatics more details view paper
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    • Site-wide: 2,584
    • In bioinformatics: 172
  • Year to date:
    • Site-wide: 12,166
  • Since beginning of last month:
    • Site-wide: 37,636

Bias, Robustness And Scalability In Differential Expression Analysis Of Single-Cell RNA-Seq Data

bioinformatics more details view paper
  • Downloaded 5,379 times
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    • Site-wide: 3,015
    • In bioinformatics: 216
  • Year to date:
    • Site-wide: 45,538
  • Since beginning of last month:
    • Site-wide: 38,433

MINI REVIEW: Statistical methods for detecting differentially methylated loci and regions

bioinformatics more details view paper
  • Downloaded 5,307 times
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    • Site-wide: 3,068
    • In bioinformatics: 220
  • Year to date:
    • Site-wide: 75,998
  • Since beginning of last month:
    • Site-wide: 17,446

Comparison of Clustering Methods for High-Dimensional Single-Cell Flow and Mass Cytometry Data

bioinformatics more details view paper
  • Downloaded 5,027 times
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    • Site-wide: 3,288
    • In bioinformatics: 238
  • Year to date:
    • Site-wide: 65,126
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    • Site-wide: 38,574

Channel crosstalk correction in suspension and imaging mass cytometry

bioinformatics more details view paper
  • Downloaded 3,177 times
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    • Site-wide: 6,336
    • In bioinformatics: 573
  • Year to date:
    • Site-wide: 56,685
  • Since beginning of last month:
    • Site-wide: 167,300

A comprehensive examination of Nanopore native RNA sequencing for characterization of complex transcriptomes

bioinformatics more details view paper
  • Downloaded 2,602 times
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    • Site-wide: 8,474
    • In bioinformatics: 849
  • Year to date:
    • Site-wide: 61,667
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    • Site-wide: 61,515

Differential transcript usage from RNA-seq data: isoform pre-filtering improves performance of count-based methods

bioinformatics more details view paper
  • Downloaded 2,570 times
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    • Site-wide: 8,631
    • In bioinformatics: 866
  • Year to date:
    • Site-wide: 115,078
  • Since beginning of last month:
    • Site-wide: 170,052

pipeComp, a general framework for the evaluation of computational pipelines, reveals performant single-cell RNA-seq preprocessing tools

bioinformatics more details view paper
  • Downloaded 2,470 times
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    • Site-wide: 9,143
    • In bioinformatics: 944
  • Year to date:
    • Site-wide: 69,812
  • Since beginning of last month:
    • Site-wide: 51,407

diffcyt: Differential discovery in high-dimensional cytometry via high-resolution clustering

bioinformatics more details view paper
  • Downloaded 2,442 times
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    • Site-wide: 9,299
    • In bioinformatics: 955
  • Year to date:
    • Site-wide: 69,730
  • Since beginning of last month:
    • Site-wide: 160,488

zingeR: unlocking RNA-seq tools for zero-inflation and single cell applications

bioinformatics more details view paper
  • Downloaded 2,334 times
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    • Site-wide: 9,953
    • In bioinformatics: 1,041
  • Year to date:
    • Site-wide: 56,672
  • Since beginning of last month:
    • Site-wide: 97,906

CrispRVariants: precisely charting the mutation spectrum in genome engineering experiments

bioinformatics more details view paper
  • Downloaded 1,880 times
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    • Site-wide: 13,783
    • In bioinformatics: 1,449
  • Year to date:
    • Site-wide: 88,314
  • Since beginning of last month:
    • Site-wide: 166,573

Single nuclei RNAseq stratifies multiple sclerosis patients into three distinct white matter glia responses

neuroscience more details view paper
  • Downloaded 1,855 times
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    • Site-wide: 14,063
    • In neuroscience: 1,916
  • Year to date:
    • Site-wide: 1,074
  • Since beginning of last month:
    • Site-wide: 1,494

Chromothripsis-like patterns are recurring but heterogeneously distributed features in a survey of 22,347 cancer genome screens

genomics more details view paper
  • Downloaded 1,814 times
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    • Site-wide: 14,542
    • In genomics: 1,317
  • Year to date:
    • Site-wide: 164,397
  • Since beginning of last month:
    • Site-wide: 100,414

Hand2 delineates mesothelium progenitors and is reactivated in mesothelioma

developmental biology more details view paper
  • Downloaded 1,568 times
  • Download rankings, all-time:
    • Site-wide: 18,236
    • In developmental biology: 272
  • Year to date:
    • Site-wide: 37,150
  • Since beginning of last month:
    • Site-wide: 40,573

distinct: a novel approach to differential distribution analyses

bioinformatics more details view paper
  • Downloaded 1,559 times
  • Download rankings, all-time:
    • Site-wide: 18,379
    • In bioinformatics: 2,043
  • Year to date:
    • Site-wide: 8,333
  • Since beginning of last month:
    • Site-wide: 81,700

Built on sand: the shaky foundations of simulating single-cell RNA sequencing data

bioinformatics more details view paper
  • Downloaded 1,469 times
  • Download rankings, all-time:
    • Site-wide: 20,211
    • In bioinformatics: 2,604
  • Year to date:
    • Site-wide: 3,986
  • Since beginning of last month:
    • Site-wide: 18,782

Highly efficient DNA-free gene disruption in the agricultural pest Ceratitis capitata by CRISPR-Cas9 RNPs

genetics more details view paper
  • Downloaded 1,236 times
  • Download rankings, all-time:
    • Site-wide: 26,535
    • In genetics: 1,055
  • Year to date:
    • Site-wide: 144,315
  • Since beginning of last month:
    • Site-wide: 130,902

ARMOR: an Automated Reproducible MOdular workflow for preprocessing and differential analysis of RNA-seq data

bioinformatics more details view paper
  • Downloaded 1,209 times
  • Download rankings, all-time:
    • Site-wide: 27,433
    • In bioinformatics: 2,940
  • Year to date:
    • Site-wide: 137,589
  • Since beginning of last month:
    • Site-wide: 98,081

Maleness-on-the-Y (MoY) orchestrates male sex determination in major agricultural fruit fly pests

genetics more details view paper
  • Downloaded 1,196 times
  • Download rankings, all-time:
    • Site-wide: 27,861
    • In genetics: 1,132
  • Year to date:
    • Site-wide: 84,477
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    • Site-wide: 25,760

Synaptic accumulation of FUS triggers age-dependent misregulation of inhibitory synapses in ALS-FUS mice

neuroscience more details view paper
  • Downloaded 1,190 times
  • Download rankings, all-time:
    • Site-wide: 28,074
    • In neuroscience: 3,388
  • Year to date:
    • Site-wide: 58,746
  • Since beginning of last month:
    • Site-wide: None

TNFR2 induced priming of NLRP3-inflammasome via RIPK1 leads to pyroptosis in XIAP deficient cells

immunology more details view paper
  • Downloaded 1,078 times
  • Download rankings, all-time:
    • Site-wide: 32,746
    • In immunology: 1,150
  • Year to date:
    • Site-wide: 85,684
  • Since beginning of last month:
    • Site-wide: 60,761

Observation weights to unlock bulk RNA-seq tools for zero inflation and single-cell applications

bioinformatics more details view paper
  • Downloaded 1,075 times
  • Download rankings, all-time:
    • Site-wide: 32,881
    • In bioinformatics: 3,480
  • Year to date:
    • Site-wide: 119,327
  • Since beginning of last month:
    • Site-wide: 99,718

Human neural networks with sparse TDP-43 pathology reveal NPTX2 misregulation in ALS/FTLD

neuroscience more details view paper
  • Downloaded 1,061 times
  • Download rankings, all-time:
    • Site-wide: 33,501
    • In neuroscience: 4,673
  • Year to date:
    • Site-wide: 5,143
  • Since beginning of last month:
    • Site-wide: 4,891

Do count-based differential expression methods perform poorly when genes are expressed in only one condition?

bioinformatics more details view paper
  • Downloaded 1,055 times
  • Download rankings, all-time:
    • Site-wide: 33,814
    • In bioinformatics: 3,570
  • Year to date:
    • Site-wide: 181,969
  • Since beginning of last month:
    • Site-wide: 75,306

Supervised spatial inference of dissociated single-cell data with SageNet

bioinformatics more details view paper
  • Downloaded 1,046 times
  • Download rankings, all-time:
    • Site-wide: 34,297
    • In bioinformatics: 4,807
  • Year to date:
    • Site-wide: 2,582
  • Since beginning of last month:
    • Site-wide: 511

Tandem repeat variation in human and great ape populations and its impact on gene expression divergence

evolutionary biology more details view paper
  • Downloaded 1,023 times
  • Download rankings, all-time:
    • Site-wide: 35,478
    • In evolutionary biology: 1,351
  • Year to date:
    • Site-wide: 173,973
  • Since beginning of last month:
    • Site-wide: 125,446

treeclimbR pinpoints the data-dependent resolution of hierarchical hypotheses

bioinformatics more details view paper
  • Downloaded 902 times
  • Download rankings, all-time:
    • Site-wide: 42,904
    • In bioinformatics: 4,366
  • Year to date:
    • Site-wide: 160,201
  • Since beginning of last month:
    • Site-wide: 146,044

SampleQC: robust multivariate, multi-celltype, multi-sample quality control for single cell data

bioinformatics more details view paper
  • Downloaded 836 times
  • Download rankings, all-time:
    • Site-wide: 48,100
    • In bioinformatics: 5,005
  • Year to date:
    • Site-wide: 18,279
  • Since beginning of last month:
    • Site-wide: 20,569

CellMixS: quantifying and visualizing batch effects in single cell RNA-seq data

bioinformatics more details view paper
  • Downloaded 792 times
  • Download rankings, all-time:
    • Site-wide: 52,132
    • In bioinformatics: 5,122
  • Year to date:
    • Site-wide: 136,968
  • Since beginning of last month:
    • Site-wide: 147,760

BANDITS: Bayesian differential splicing accounting for sample-to-sample variability and mapping uncertainty

bioinformatics more details view paper
  • Downloaded 757 times
  • Download rankings, all-time:
    • Site-wide: 55,657
    • In bioinformatics: 5,421
  • Year to date:
    • Site-wide: 188,059
  • Since beginning of last month:
    • Site-wide: 165,524

A general and powerful stage-wise testing procedure for differential expression and differential transcript usage

bioinformatics more details view paper
  • Downloaded 756 times
  • Download rankings, all-time:
    • Site-wide: 55,788
    • In bioinformatics: 5,444
  • Year to date:
    • Site-wide: 181,396
  • Since beginning of last month:
    • Site-wide: 75,009

A junction coverage compatibility score to quantify the reliability of transcript abundance estimates and annotation catalogs

bioinformatics more details view paper
  • Downloaded 665 times
  • Download rankings, all-time:
    • Site-wide: 66,863
    • In bioinformatics: 6,263
  • Year to date:
    • Site-wide: 198,132
  • Since beginning of last month:
    • Site-wide: 125,676

ReSeq simulates realistic Illumina high-throughput sequencing data

genomics more details view paper
  • Downloaded 639 times
  • Download rankings, all-time:
    • Site-wide: 70,619
    • In genomics: 4,731
  • Year to date:
    • Site-wide: 163,127
  • Since beginning of last month:
    • Site-wide: 110,158

iCOBRA: open, reproducible, standardized and live method benchmarking

bioinformatics more details view paper
  • Downloaded 632 times
  • Download rankings, all-time:
    • Site-wide: 71,592
    • In bioinformatics: 6,670
  • Year to date:
    • Site-wide: 190,585
  • Since beginning of last month:
    • Site-wide: 60,722

DAMEfinder: A method to detect differential allele-specific methylation

bioinformatics more details view paper
  • Downloaded 628 times
  • Download rankings, all-time:
    • Site-wide: 72,198
    • In bioinformatics: 6,658
  • Year to date:
    • Site-wide: 135,698
  • Since beginning of last month:
    • Site-wide: None

The proto CpG island methylator phenotype of sessile serrated adenoma/polyps

cancer biology more details view paper
  • Downloaded 623 times
  • Download rankings, all-time:
    • Site-wide: 73,004
    • In cancer biology: 2,093
  • Year to date:
    • Site-wide: 184,424
  • Since beginning of last month:
    • Site-wide: 127,276

Transformation of alignment files improves performance of variant callers for long-read RNA sequencing data

bioinformatics more details view paper
  • Downloaded 575 times
  • Download rankings, all-time:
    • Site-wide: 80,774
    • In bioinformatics: 7,633
  • Year to date:
    • Site-wide: 6,704
  • Since beginning of last month:
    • Site-wide: 55,276

Gapless provides combined scaffolding, gap filling and assembly correction with long reads

bioinformatics more details view paper
  • Downloaded 551 times
  • Download rankings, all-time:
    • Site-wide: 85,151
    • In bioinformatics: 8,182
  • Year to date:
    • Site-wide: 7,207
  • Since beginning of last month:
    • Site-wide: 34,823

benchmarkR: an R package for benchmarking genome-scale methods

bioinformatics more details view paper
  • Downloaded 529 times
  • Download rankings, all-time:
    • Site-wide: 89,463
    • In bioinformatics: 7,842
  • Year to date:
    • Site-wide: 195,168
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    • Site-wide: 166,361

Loss of C3aR induces immune infiltration and inflammatory microbiota in a novel spontaneous model of colon cancer

immunology more details view paper
  • Downloaded 474 times
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    • Site-wide: 101,107
    • In immunology: 3,258
  • Year to date:
    • Site-wide: 50,415
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    • Site-wide: 33,282

Mass Cytometric and Transcriptomic Profiling of Epithelial-Mesenchymal Transitions in Human Mammary Cell Lines

cell biology more details view paper
  • Downloaded 430 times
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    • Site-wide: 111,663
    • In cell biology: 5,162
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    • Site-wide: 105,267
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    • Site-wide: 56,715

Active Receptor Tyrosine Kinases, but not Brachyury, are sufficient to trigger chordoma in zebrafish

cancer biology more details view paper
  • Downloaded 410 times
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    • Site-wide: 116,635
    • In cancer biology: 3,491
  • Year to date:
    • Site-wide: 186,757
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ARPEGGIO: Automated Reproducible Polyploid EpiGenetic GuIdance workflOw

bioinformatics more details view paper
  • Downloaded 376 times
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    • Site-wide: 125,948
    • In bioinformatics: 10,173
  • Year to date:
    • Site-wide: 178,176
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    • Site-wide: 137,615

A comprehensive single-cell atlas of freshly dissociated human synovium in inflammatory arthritis with an optimized dissociation protocol for prospective fresh synovial biopsy collection

genomics more details view paper
  • Downloaded 370 times
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    • Site-wide: 127,863
    • In genomics: 7,414
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    • Site-wide: 13,982
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    • Site-wide: 6,319

H3K4me3 enrichment defines neuronal age, while a youthful H3K27ac signature is recapitulated in aged neurons

molecular biology more details view paper
  • Downloaded 326 times
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    • Site-wide: 140,428
    • In molecular biology: 4,096
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    • Site-wide: 59,278
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    • Site-wide: 174,646

A cis-regulatory element promoting increased transcription at low temperature in cultured ectothermic Drosophila cells

cell biology more details view paper
  • Downloaded 310 times
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    • Site-wide: 145,265
    • In cell biology: 6,674
  • Year to date:
    • Site-wide: 167,866
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    • Site-wide: None

LincRNAs involved in DCS-induced fear extinction: Shedding light on the transcriptomic dark matter

genomics more details view paper
  • Downloaded 268 times
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    • Site-wide: 157,571
    • In genomics: 7,976
  • Year to date:
    • Site-wide: 192,672
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censcyt: censored covariates in differential abundance analysis in cytometry

bioinformatics more details view paper
  • Downloaded 254 times
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    • Site-wide: 161,737
    • In bioinformatics: 12,249
  • Year to date:
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    • Site-wide: 137,738

The structure of yeast Npl3 bound to RNA reveals a cooperative sequence-specific recognition and an RNA chaperone role in splicing

biophysics more details view paper
  • Downloaded 213 times
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    • Site-wide: 172,519
    • In biophysics: 6,788
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