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Author: Nir Yosef

Rankings

  • All-time downloads: 79,342 (rank: 1,687 )
  • Categories:
    • bioinformatics: 37,653 (rank: 74 (tie) )
    • cancer biology: 3,887 (rank: 859 (tie) )
    • cell biology: 14,850 (rank: 29 )
    • developmental biology: 183 (rank: 16,529 (tie) )
    • genomics: 13,372 (rank: 1,132 )
    • immunology: 7,961 (rank: 732 )
    • systems biology: 1,436 (rank: 2,710 (tie) )

Downloads per author, site-wide

Preprints

The Human Cell Atlas

cell biology more details view paper
  • Downloaded 12,553 times
  • Download rankings, all-time:
    • Site-wide: 542
    • In cell biology: 4
  • Year to date:
    • Site-wide: 18,069
  • Since beginning of last month:
    • Site-wide: 18,069

Bayesian Inference for a Generative Model of Transcriptome Profiles from Single-cell RNA Sequencing

bioinformatics more details view paper
  • Downloaded 8,570 times
  • Download rankings, all-time:
    • Site-wide: 916
    • In bioinformatics: 52
  • Year to date:
    • Site-wide: 22,653
  • Since beginning of last month:
    • Site-wide: 22,653

Probabilistic Harmonization and Annotation of Single-cell Transcriptomics Data with Deep Generative Models

bioinformatics more details view paper
  • Downloaded 7,894 times
  • Download rankings, all-time:
    • Site-wide: 1,007
    • In bioinformatics: 61
  • Year to date:
    • Site-wide: 1,740
  • Since beginning of last month:
    • Site-wide: 1,740

Integrated single cell analysis of blood and cerebrospinal fluid leukocytes in multiple sclerosis

immunology more details view paper
  • Downloaded 4,220 times
  • Download rankings, all-time:
    • Site-wide: 2,347
    • In immunology: 63
  • Year to date:
    • Site-wide: 24,769
  • Since beginning of last month:
    • Site-wide: 24,769

Performance Assessment and Selection of Normalization Procedures for Single-Cell RNA-seq

genomics more details view paper
  • Downloaded 3,933 times
  • Download rankings, all-time:
    • Site-wide: 2,593
    • In genomics: 301
  • Year to date:
    • Site-wide: 16,219
  • Since beginning of last month:
    • Site-wide: 16,219

Single-cell lineages reveal the rates, routes, and drivers of metastasis in cancer xenografts

cancer biology more details view paper
  • Downloaded 3,887 times
  • Download rankings, all-time:
    • Site-wide: 2,640
    • In cancer biology: 39
  • Year to date:
    • Site-wide: 420
  • Since beginning of last month:
    • Site-wide: 420

Joint probabilistic modeling of paired transcriptome and proteome measurements in single cells

bioinformatics more details view paper
  • Downloaded 3,238 times
  • Download rankings, all-time:
    • Site-wide: 3,465
    • In bioinformatics: 363
  • Year to date:
    • Site-wide: 1,382
  • Since beginning of last month:
    • Site-wide: 1,382

Slingshot: Cell lineage and pseudotime inference for single-cell transcriptomics

bioinformatics more details view paper
  • Downloaded 2,481 times
  • Download rankings, all-time:
    • Site-wide: 5,066
    • In bioinformatics: 571
  • Year to date:
    • Site-wide: 21,405
  • Since beginning of last month:
    • Site-wide: 21,405

A Joint Model of RNA Expression and Surface Protein Abundance in Single Cells

bioinformatics more details view paper
  • Downloaded 2,388 times
  • Download rankings, all-time:
    • Site-wide: 5,363
    • In bioinformatics: 613
  • Year to date:
    • Site-wide: 8,086
  • Since beginning of last month:
    • Site-wide: 8,086

Deep Generative Models for Detecting Differential Expression in Single Cells

cell biology more details view paper
  • Downloaded 2,297 times
  • Download rankings, all-time:
    • Site-wide: 5,682
    • In cell biology: 119
  • Year to date:
    • Site-wide: 5,735
  • Since beginning of last month:
    • Site-wide: 5,735

In Silico Modeling of Metabolic State in Single Th17 Cells Reveals Novel Regulators of Inflammation and Autoimmunity

genomics more details view paper
  • Downloaded 2,021 times
  • Download rankings, all-time:
    • Site-wide: 6,802
    • In genomics: 771
  • Year to date:
    • Site-wide: 2,304
  • Since beginning of last month:
    • Site-wide: 2,304

Meta-analysis of massive parallel reporter assay enables functional regulatory elements prediction

genomics more details view paper
  • Downloaded 1,871 times
  • Download rankings, all-time:
    • Site-wide: 7,636
    • In genomics: 850
  • Year to date:
    • Site-wide: 49,529
  • Since beginning of last month:
    • Site-wide: 49,529

Functional Interpretation of Single-Cell Similarity Maps

bioinformatics more details view paper
  • Downloaded 1,734 times
  • Download rankings, all-time:
    • Site-wide: 8,582
    • In bioinformatics: 1,053
  • Year to date:
    • Site-wide: 23,186
  • Since beginning of last month:
    • Site-wide: 23,186

Impulse model-based differential expression analysis of time course sequencing data

bioinformatics more details view paper
  • Downloaded 1,629 times
  • Download rankings, all-time:
    • Site-wide: 9,465
    • In bioinformatics: 1,159
  • Year to date:
    • Site-wide: None
  • Since beginning of last month:
    • Site-wide: None

FastProject: A Tool for Low-Dimensional Analysis of Single-Cell RNA-Seq Data

genomics more details view paper
  • Downloaded 1,563 times
  • Download rankings, all-time:
    • Site-wide: 10,050
    • In genomics: 1,112
  • Year to date:
    • Site-wide: 87,645
  • Since beginning of last month:
    • Site-wide: 87,645

Targeted reconstruction of T cell receptor sequence from single cell RNA-sequencing links CDR3 length to T cell differentiation state

bioinformatics more details view paper
  • Downloaded 1,562 times
  • Download rankings, all-time:
    • Site-wide: 10,051
    • In bioinformatics: 1,250
  • Year to date:
    • Site-wide: 96,331
  • Since beginning of last month:
    • Site-wide: 96,331

Detecting Zero-Inflated Genes in Single-Cell Transcriptomics Data

bioinformatics more details view paper
  • Downloaded 1,500 times
  • Download rankings, all-time:
    • Site-wide: 10,650
    • In bioinformatics: 1,313
  • Year to date:
    • Site-wide: 14,314
  • Since beginning of last month:
    • Site-wide: 14,314

Massively parallel characterization of regulatory dynamics during neural induction

genomics more details view paper
  • Downloaded 1,452 times
  • Download rankings, all-time:
    • Site-wide: 11,164
    • In genomics: 1,245
  • Year to date:
    • Site-wide: 60,336
  • Since beginning of last month:
    • Site-wide: 60,336

Alterations of multiple alveolar macrophage states in chronic obstructive pulmonary disease

systems biology more details view paper
  • Downloaded 1,436 times
  • Download rankings, all-time:
    • Site-wide: 11,344
    • In systems biology: 222
  • Year to date:
    • Site-wide: 10,192
  • Since beginning of last month:
    • Site-wide: 10,192

Metabolic and Epigenomic Regulation of Th17/Treg Balance by the Polyamine Pathway

immunology more details view paper
  • Downloaded 1,424 times
  • Download rankings, all-time:
    • Site-wide: 11,511
    • In immunology: 314
  • Year to date:
    • Site-wide: 3,877
  • Since beginning of last month:
    • Site-wide: 3,877

Inference of Single-Cell Phylogenies from Lineage Tracing Data

bioinformatics more details view paper
  • Downloaded 1,230 times
  • Download rankings, all-time:
    • Site-wide: 14,356
    • In bioinformatics: 1,774
  • Year to date:
    • Site-wide: 41,746
  • Since beginning of last month:
    • Site-wide: 41,746

Polyamine metabolism regulates the T cell epigenome through hypusination

immunology more details view paper
  • Downloaded 1,228 times
  • Download rankings, all-time:
    • Site-wide: 14,387
    • In immunology: 404
  • Year to date:
    • Site-wide: 8,059
  • Since beginning of last month:
    • Site-wide: 8,059

Coverage-dependent bias creates the appearance of binary splicing in single cells

genomics more details view paper
  • Downloaded 1,177 times
  • Download rankings, all-time:
    • Site-wide: 15,334
    • In genomics: 1,620
  • Year to date:
    • Site-wide: 114,213
  • Since beginning of last month:
    • Site-wide: 114,213

Identifying Informative Gene Modules Across Modalities of Single Cell Genomics

bioinformatics more details view paper
  • Downloaded 1,121 times
  • Download rankings, all-time:
    • Site-wide: 16,504
    • In bioinformatics: 2,022
  • Year to date:
    • Site-wide: 8,517
  • Since beginning of last month:
    • Site-wide: 8,517

Mango: Distributed Visualization for Genomic Analysis

bioinformatics more details view paper
  • Downloaded 1,115 times
  • Download rankings, all-time:
    • Site-wide: 16,659
    • In bioinformatics: 2,038
  • Year to date:
    • Site-wide: 36,303
  • Since beginning of last month:
    • Site-wide: 36,303

SymSim: simulating multi-faceted variability in single cell RNA sequencing

bioinformatics more details view paper
  • Downloaded 1,043 times
  • Download rankings, all-time:
    • Site-wide: 18,396
    • In bioinformatics: 2,222
  • Year to date:
    • Site-wide: 60,136
  • Since beginning of last month:
    • Site-wide: 60,136

Use antibiotics in cell culture with caution: genome-wide identification of antibiotic-induced changes in gene expression and regulation

genomics more details view paper
  • Downloaded 921 times
  • Download rankings, all-time:
    • Site-wide: 22,012
    • In genomics: 2,192
  • Year to date:
    • Site-wide: 6,687
  • Since beginning of last month:
    • Site-wide: 6,687

Oleic acid Induces Tissue Resident FoxP3 Regulatory T cell Lineage Stability and Suppressive Functions

immunology more details view paper
  • Downloaded 705 times
  • Download rankings, all-time:
    • Site-wide: 32,046
    • In immunology: 874
  • Year to date:
    • Site-wide: 17,697
  • Since beginning of last month:
    • Site-wide: 17,697

Reconstructing B cell receptor sequences from short-read single cell RNA-sequencing with BRAPeS

bioinformatics more details view paper
  • Downloaded 700 times
  • Download rankings, all-time:
    • Site-wide: 32,355
    • In bioinformatics: 3,664
  • Year to date:
    • Site-wide: 100,010
  • Since beginning of last month:
    • Site-wide: 100,010

MPRAnalyze - A statistical framework for Massively Parallel Reporter Assays

bioinformatics more details view paper
  • Downloaded 571 times
  • Download rankings, all-time:
    • Site-wide: 42,101
    • In bioinformatics: 4,534
  • Year to date:
    • Site-wide: None
  • Since beginning of last month:
    • Site-wide: None

Single-cell transcriptomics of the Drosophila wing disc reveals instructive epithelium-to-myoblast interactions

bioinformatics more details view paper
  • Downloaded 480 times
  • Download rankings, all-time:
    • Site-wide: 51,865
    • In bioinformatics: 5,333
  • Year to date:
    • Site-wide: 11,696
  • Since beginning of last month:
    • Site-wide: 11,696

Cytoplasmic mRNA decay factors modulate RNA polymerase II processivity in 5' and 3' gene regions in yeast

genomics more details view paper
  • Downloaded 434 times
  • Download rankings, all-time:
    • Site-wide: 57,712
    • In genomics: 4,342
  • Year to date:
    • Site-wide: 89,104
  • Since beginning of last month:
    • Site-wide: 89,104

Connectivity Problems on Heterogeneous Graphs

bioinformatics more details view paper
  • Downloaded 397 times
  • Download rankings, all-time:
    • Site-wide: 63,221
    • In bioinformatics: 6,173
  • Year to date:
    • Site-wide: 99,496
  • Since beginning of last month:
    • Site-wide: 99,496

Batf-mediated Epigenetic Control of Effector CD8+ T Cell Differentiation

immunology more details view paper
  • Downloaded 229 times
  • Download rankings, all-time:
    • Site-wide: 95,173
    • In immunology: 2,630
  • Year to date:
    • Site-wide: 3,467
  • Since beginning of last month:
    • Site-wide: 3,467

T cell self-reactivity during thymic development dictates the timing of positive selection

developmental biology more details view paper
  • Downloaded 183 times
  • Download rankings, all-time:
    • Site-wide: 105,120
    • In developmental biology: 2,861
  • Year to date:
    • Site-wide: 4,766
  • Since beginning of last month:
    • Site-wide: 4,766

Mucosal vaccination with cyclic-di-nucleotide adjuvants induces effective T cell homing and IL-17 dependent protection against M. tuberculosis infection

immunology more details view paper
  • Downloaded 155 times
  • Download rankings, all-time:
    • Site-wide: 110,586
    • In immunology: 3,084
  • Year to date:
    • Site-wide: 35,322
  • Since beginning of last month:
    • Site-wide: 35,322

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