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Author: Aviv Regev

Rankings

  • All-time downloads: 368,643 (rank: 59 )
  • Categories:
    • bioengineering: 10,708 (rank: 57 )
    • bioinformatics: 36,202 (rank: 83 )
    • cancer biology: 23,056 (rank: 32 )
    • cell biology: 23,148 (rank: 8 )
    • developmental biology: 10,981 (rank: 50 )
    • epidemiology: 4,117 (rank: 3,485 (tie) )
    • evolutionary biology: 857 (rank: 9,017 (tie) )
    • gastroenterology: 581 (rank: 674 (tie) )
    • genetic and genomic medicine: 3,462 (rank: 945 (tie) )
    • genetics: 1,345 (rank: 13,541 (tie) )
    • genomics: 161,528 (rank: 4 )
    • immunology: 12,818 (rank: 701 )
    • molecular biology: 29,578 (rank: 23 )
    • neuroscience: 44,480 (rank: 68 )
    • systems biology: 5,782 (rank: 624 )

Downloads per author, site-wide

Preprints

LAMP-Seq: Population-Scale COVID-19 Diagnostics Using Combinatorial Barcoding

molecular biology more details view paper
  • Downloaded 18,080 times
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    • Site-wide: 451
    • In molecular biology: 6
  • Year to date:
    • Site-wide: 1,306
  • Since beginning of last month:
    • Site-wide: 1,520

Systematic comparative analysis of single cell RNA-sequencing methods

genomics more details view paper
  • Downloaded 14,890 times
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    • Site-wide: 566
    • In genomics: 28
  • Year to date:
    • Site-wide: 1,894
  • Since beginning of last month:
    • Site-wide: 73,715

Benchmarking Single-Cell RNA Sequencing Protocols for Cell Atlas Projects

genomics more details view paper
  • Downloaded 13,119 times
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    • Site-wide: 677
    • In genomics: 42
  • Year to date:
    • Site-wide: 4,322
  • Since beginning of last month:
    • Site-wide: 87,398

The Human Cell Atlas

cell biology more details view paper
  • Downloaded 12,728 times
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    • Site-wide: 705
    • In cell biology: 5
  • Year to date:
    • Site-wide: 26,801
  • Since beginning of last month:
    • Site-wide: 93,934

Reconstruction of developmental landscapes by optimal-transport analysis of single-cell gene expression sheds light on cellular reprogramming.

bioinformatics more details view paper
  • Downloaded 11,978 times
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    • Site-wide: 769
    • In bioinformatics: 29
  • Year to date:
    • Site-wide: 14,507
  • Since beginning of last month:
    • Site-wide: 93,437

Chromatin potential identified by shared single cell profiling of RNA and chromatin

genomics more details view paper
  • Downloaded 9,846 times
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    • Site-wide: 997
    • In genomics: 71
  • Year to date:
    • Site-wide: 1,446
  • Since beginning of last month:
    • Site-wide: 35,941

DNA microscopy: Optics-free spatio-genetic imaging by a stand-alone chemical reaction

bioengineering more details view paper
  • Downloaded 9,336 times
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    • Site-wide: 1,054
    • In bioengineering: 7
  • Year to date:
    • Site-wide: 72,802
  • Since beginning of last month:
    • Site-wide: 113,404

STAR-Fusion: Fast and Accurate Fusion Transcript Detection from RNA-Seq

bioinformatics more details view paper
  • Downloaded 9,163 times
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    • Site-wide: 1,086
    • In bioinformatics: 56
  • Year to date:
    • Site-wide: 2,055
  • Since beginning of last month:
    • Site-wide: 1,003

Expansion Sequencing: Spatially Precise In Situ Transcriptomics in Intact Biological Systems

genomics more details view paper
  • Downloaded 8,653 times
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    • Site-wide: 1,165
    • In genomics: 88
  • Year to date:
    • Site-wide: 1,865
  • Since beginning of last month:
    • Site-wide: 9,227

A single-cell and single-nucleus RNA-seq toolbox for fresh and frozen human tumors

genomics more details view paper
  • Downloaded 7,733 times
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    • Site-wide: 1,354
    • In genomics: 107
  • Year to date:
    • Site-wide: 7,976
  • Since beginning of last month:
    • Site-wide: 9,372

High-density spatial transcriptomics arrays for in situ tissue profiling

genomics more details view paper
  • Downloaded 7,396 times
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    • Site-wide: 1,430
    • In genomics: 116
  • Year to date:
    • Site-wide: 12,024
  • Since beginning of last month:
    • Site-wide: 9,349

The enteric nervous system of the human and mouse colon at a single-cell resolution

genomics more details view paper
  • Downloaded 7,317 times
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    • Site-wide: 1,443
    • In genomics: 118
  • Year to date:
    • Site-wide: 3,055
  • Since beginning of last month:
    • Site-wide: 1,852

DroNc-Seq: Deciphering cell types in human archived brain tissues by massively-parallel single nucleus RNA-seq

genomics more details view paper
  • Downloaded 7,063 times
  • Download rankings, all-time:
    • Site-wide: 1,501
    • In genomics: 120
  • Year to date:
    • Site-wide: 54,280
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    • Site-wide: None

An integrated transcriptomic and epigenomic atlas of mouse primary motor cortex cell types

neuroscience more details view paper
  • Downloaded 6,539 times
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    • Site-wide: 1,669
    • In neuroscience: 81
  • Year to date:
    • Site-wide: 1,192
  • Since beginning of last month:
    • Site-wide: 684

In vivo Perturb-Seq reveals neuronal and glial abnormalities associated with Autism risk genes

genomics more details view paper
  • Downloaded 6,503 times
  • Download rankings, all-time:
    • Site-wide: 1,681
    • In genomics: 135
  • Year to date:
    • Site-wide: 5,904
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    • Site-wide: 109,291

Simultaneous single cell measurements of intranuclear proteins and gene expression

genomics more details view paper
  • Downloaded 5,888 times
  • Download rankings, all-time:
    • Site-wide: 1,932
    • In genomics: 161
  • Year to date:
    • Site-wide: 383
  • Since beginning of last month:
    • Site-wide: 29,717

Evolution of cellular diversity in primary motor cortex of human, marmoset monkey, and mouse

neuroscience more details view paper
  • Downloaded 5,784 times
  • Download rankings, all-time:
    • Site-wide: 1,976
    • In neuroscience: 100
  • Year to date:
    • Site-wide: 1,406
  • Since beginning of last month:
    • Site-wide: 14,542

Deciphering eukaryotic cis-regulatory logic with 100 million random promoters

genomics more details view paper
  • Downloaded 5,741 times
  • Download rankings, all-time:
    • Site-wide: 1,993
    • In genomics: 168
  • Year to date:
    • Site-wide: 59,042
  • Since beginning of last month:
    • Site-wide: 22,648

Deep generative model embedding of single-cell RNA-Seq profiles on hyperspheres and hyperbolic spaces

bioinformatics more details view paper
  • Downloaded 5,726 times
  • Download rankings, all-time:
    • Site-wide: 2,003
    • In bioinformatics: 144
  • Year to date:
    • Site-wide: 5,469
  • Since beginning of last month:
    • Site-wide: 87,348

Scalable, multimodal profiling of chromatin accessibility and protein levels in single cells

genomics more details view paper
  • Downloaded 5,564 times
  • Download rankings, all-time:
    • Site-wide: 2,087
    • In genomics: 183
  • Year to date:
    • Site-wide: 1,207
  • Since beginning of last month:
    • Site-wide: 43,912

A cellular and spatial map of the choroid plexus across brain ventricles and ages

neuroscience more details view paper
  • Downloaded 5,490 times
  • Download rankings, all-time:
    • Site-wide: 2,125
    • In neuroscience: 113
  • Year to date:
    • Site-wide: 1,595
  • Since beginning of last month:
    • Site-wide: 79,657

Deep learning and alignment of spatially-resolved whole transcriptomes of single cells in the mouse brain with Tangram

genomics more details view paper
  • Downloaded 5,305 times
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    • Site-wide: 2,221
    • In genomics: 197
  • Year to date:
    • Site-wide: 871
  • Since beginning of last month:
    • Site-wide: 15,296

Genetic determinants of co-accessible chromatin regions in T cell activation across humans

genomics more details view paper
  • Downloaded 5,111 times
  • Download rankings, all-time:
    • Site-wide: 2,339
    • In genomics: 214
  • Year to date:
    • Site-wide: 54,260
  • Since beginning of last month:
    • Site-wide: 24,545

C2c2 is a single-component programmable RNA-guided RNA-targeting CRISPR effector

molecular biology more details view paper
  • Downloaded 4,805 times
  • Download rankings, all-time:
    • Site-wide: 2,553
    • In molecular biology: 47
  • Year to date:
    • Site-wide: 80,208
  • Since beginning of last month:
    • Site-wide: 22,902

A transcriptomic atlas of the mouse cerebellum reveals regional specializations and novel cell types

genomics more details view paper
  • Downloaded 4,608 times
  • Download rankings, all-time:
    • Site-wide: 2,703
    • In genomics: 265
  • Year to date:
    • Site-wide: 1,490
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    • Site-wide: 648

Thousands of novel unannotated proteins expand the MHC I immunopeptidome in cancer

cancer biology more details view paper
  • Downloaded 4,593 times
  • Download rankings, all-time:
    • Site-wide: 2,720
    • In cancer biology: 34
  • Year to date:
    • Site-wide: 1,992
  • Since beginning of last month:
    • Site-wide: 1,370

A multimodal cell census and atlas of the mammalian primary motor cortex

neuroscience more details view paper
  • Downloaded 4,578 times
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    • Site-wide: 2,727
    • In neuroscience: 167
  • Year to date:
    • Site-wide: 1,587
  • Since beginning of last month:
    • Site-wide: 954

Single-nucleus and spatial transcriptomics of archival pancreatic cancer reveals multi-compartment reprogramming after neoadjuvant treatment

genomics more details view paper
  • Downloaded 4,551 times
  • Download rankings, all-time:
    • Site-wide: 2,751
    • In genomics: 274
  • Year to date:
    • Site-wide: 1,355
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    • Site-wide: 48,931

A single cell-based atlas of human microglial states reveals associations with neurological disorders and histopathological features of the aging brain

neuroscience more details view paper
  • Downloaded 4,482 times
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    • Site-wide: 2,802
    • In neuroscience: 171
  • Year to date:
    • Site-wide: 28,459
  • Since beginning of last month:
    • Site-wide: 105,845

Nuclei multiplexing with barcoded antibodies for single-nucleus genomics

genomics more details view paper
  • Downloaded 4,447 times
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    • Site-wide: 2,836
    • In genomics: 287
  • Year to date:
    • Site-wide: 16,258
  • Since beginning of last month:
    • Site-wide: 8,771

Pan-cancer single cell RNA-seq uncovers recurring programs of cellular heterogeneity

cancer biology more details view paper
  • Downloaded 4,365 times
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    • Site-wide: 2,915
    • In cancer biology: 40
  • Year to date:
    • Site-wide: 13,072
  • Since beginning of last month:
    • Site-wide: 115,928

Molecular Logic of Cellular Diversification in the Mammalian Cerebral Cortex

developmental biology more details view paper
  • Downloaded 4,357 times
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    • Site-wide: 2,921
    • In developmental biology: 24
  • Year to date:
    • Site-wide: 2,763
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    • Site-wide: 4,167

Single-cell transcriptomics of the aged mouse brain reveals convergent, divergent and unique aging signatures

neuroscience more details view paper
  • Downloaded 4,324 times
  • Download rankings, all-time:
    • Site-wide: 2,963
    • In neuroscience: 189
  • Year to date:
    • Site-wide: 18,130
  • Since beginning of last month:
    • Site-wide: 86,216

A single-cell and spatial atlas of autopsy tissues reveals pathology and cellular targets of SARS-CoV-2

genomics more details view paper
  • Downloaded 4,172 times
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    • Site-wide: 3,112
    • In genomics: 318
  • Year to date:
    • Site-wide: 547
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    • Site-wide: 39,389

Using viral load and epidemic dynamics to optimize pooled testing in resource constrained settings

epidemiology more details view paper
  • Downloaded 4,117 times
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    • Site-wide: 3,168
    • In epidemiology: 340
  • Year to date:
    • Site-wide: 7,749
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    • Site-wide: 7,085

High-resolution interrogation of functional elements in the noncoding genome

molecular biology more details view paper
  • Downloaded 4,066 times
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    • Site-wide: 3,220
    • In molecular biology: 67
  • Year to date:
    • Site-wide: 89,079
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    • Site-wide: 46,148

Div-Seq: A single nucleus RNA-Seq method reveals dynamics of rare adult newborn neurons in the CNS

neuroscience more details view paper
  • Downloaded 3,797 times
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    • Site-wide: 3,558
    • In neuroscience: 260
  • Year to date:
    • Site-wide: 63,646
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    • Site-wide: 118,019

Decoding the development of the blood and immune systems during human fetal liver haematopoiesis

developmental biology more details view paper
  • Downloaded 3,724 times
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    • Site-wide: 3,646
    • In developmental biology: 32
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    • Site-wide: 21,732
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    • Site-wide: 9,711

Identifying disease-critical cell types and cellular processes across the human body by integration of single-cell profiles and human genetics

genomics more details view paper
  • Downloaded 3,520 times
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    • Site-wide: 3,931
    • In genomics: 399
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    • Site-wide: 662
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Leveraging polygenic enrichments of gene features to predict genes underlying complex traits and diseases

genetic and genomic medicine more details view paper
  • Downloaded 3,462 times
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    • Site-wide: 4,030
    • In genetic and genomic medicine: 15
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    • Site-wide: 1,656
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    • Site-wide: 1,855

Single-cell profiles of retinal neurons differing in resilience to injury reveal neuroprotective genes

neuroscience more details view paper
  • Downloaded 3,431 times
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    • Site-wide: 4,079
    • In neuroscience: 320
  • Year to date:
    • Site-wide: 5,684
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Composite measurements and molecular compressed sensing for highly efficient transcriptomics

systems biology more details view paper
  • Downloaded 3,410 times
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    • Site-wide: 4,120
    • In systems biology: 62
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    • Site-wide: 56,744
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    • Site-wide: 92,518

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

genomics more details view paper
  • Downloaded 2,988 times
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    • Site-wide: 4,967
    • In genomics: 501
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    • Site-wide: 2,445
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    • Site-wide: 87,213

Skin inflammation driven by differentiation of quiescent tissue-resident ILCs into a spectrum of pathogenic effectors

immunology more details view paper
  • Downloaded 2,970 times
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    • Site-wide: 5,010
    • In immunology: 181
  • Year to date:
    • Site-wide: 13,279
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    • Site-wide: 107,474

Single-nucleus cross-tissue molecular reference maps to decipher disease gene function

cell biology more details view paper
  • Downloaded 2,915 times
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    • Site-wide: 5,136
    • In cell biology: 96
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Compressed sensing for imaging transcriptomics

molecular biology more details view paper
  • Downloaded 2,627 times
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    • Site-wide: 5,961
    • In molecular biology: 134
  • Year to date:
    • Site-wide: 7,107
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    • Site-wide: 22,495

Multicellular immune hubs and their organization in MMRd and MMRp colorectal cancer

cancer biology more details view paper
  • Downloaded 2,569 times
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    • Site-wide: 6,182
    • In cancer biology: 94
  • Year to date:
    • Site-wide: 984
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    • Site-wide: 29,473

A comprehensive fitness landscape model reveals the evolutionary history and future evolvability of eukaryotic cis-regulatory DNA sequences

genomics more details view paper
  • Downloaded 2,543 times
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    • Site-wide: 6,293
    • In genomics: 661
  • Year to date:
    • Site-wide: 1,002
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    • Site-wide: 1,517

Heterogeneous Responses of Hematopoietic Stem Cells to Inflammatory Stimuli are Altered with Age

immunology more details view paper
  • Downloaded 2,459 times
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    • Site-wide: 6,602
    • In immunology: 224
  • Year to date:
    • Site-wide: 74,677
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    • Site-wide: None

Molecular Classification and Comparative Taxonomics of Foveal and Peripheral Cells in Primate Retina

neuroscience more details view paper
  • Downloaded 2,459 times
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    • Site-wide: 6,601
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    • Site-wide: 76,788
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    • Site-wide: 27,221

Massively parallel phenotyping of variant impact in cancer with Perturb-seq reveals a shift in the spectrum of cell states induced by somatic mutations

genomics more details view paper
  • Downloaded 2,429 times
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    • Site-wide: 6,718
    • In genomics: 713
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    • Site-wide: 3,757
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    • Site-wide: 53,481

Mapping multicellular programs from single-cell profiles

systems biology more details view paper
  • Downloaded 2,372 times
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    • Site-wide: 6,965
    • In systems biology: 116
  • Year to date:
    • Site-wide: 5,169
  • Since beginning of last month:
    • Site-wide: 32,401

Aging-associated alterations in the mammary gland revealed by single-cell RNA sequencing

cell biology more details view paper
  • Downloaded 2,346 times
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    • Site-wide: 7,069
    • In cell biology: 148
  • Year to date:
    • Site-wide: 22,822
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    • Site-wide: 113,200

Human brain organoids reveal accelerated development of cortical neuron classes as a shared feature of autism risk genes

developmental biology more details view paper
  • Downloaded 2,333 times
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    • Site-wide: 7,121
    • In developmental biology: 81
  • Year to date:
    • Site-wide: 2,372
  • Since beginning of last month:
    • Site-wide: 2,084

T helper cells modulate intestinal stem cell renewal and differentiation

immunology more details view paper
  • Downloaded 2,319 times
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    • Site-wide: 7,193
    • In immunology: 246
  • Year to date:
    • Site-wide: 71,779
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    • Site-wide: 24,668

Single Cell, Single Nucleus and Spatial RNA Sequencing of the Human Liver Identifies Hepatic Stellate Cell and Cholangiocyte Heterogeneity

cell biology more details view paper
  • Downloaded 2,223 times
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    • Site-wide: 7,658
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    • Site-wide: 1,182
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    • Site-wide: 596

Multiplexed single-cell profiling of post-perturbation transcriptional responses to define cancer vulnerabilities and therapeutic mechanism of action

cancer biology more details view paper
  • Downloaded 2,212 times
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    • Site-wide: 7,706
    • In cancer biology: 117
  • Year to date:
    • Site-wide: 37,790
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    • Site-wide: 119,623

SM-Omics: An automated platform for high-throughput spatial multi-omics

genomics more details view paper
  • Downloaded 2,200 times
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    • Site-wide: 7,763
    • In genomics: 806
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    • Site-wide: 5,455
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    • Site-wide: 74,228

Cycling cancer persister cells arise from lineages with distinct transcriptional and metabolic programs

cancer biology more details view paper
  • Downloaded 2,171 times
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    • Site-wide: 7,922
    • In cancer biology: 124
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    • Site-wide: 2,323
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    • Site-wide: 471

Longitudinal single cell profiling of regulatory T cells identifies IL-33 as a driver of tumor immunosuppression

cancer biology more details view paper
  • Downloaded 2,143 times
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    • Site-wide: 8,071
    • In cancer biology: 129
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    • Site-wide: 93,563

Landscape of X chromosome inactivation across human tissues

genomics more details view paper
  • Downloaded 2,105 times
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    • Site-wide: 8,287
    • In genomics: 854
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    • Site-wide: 82,950
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Kidney organoid reproducibility across multiple human iPSC lines and diminished off target cells after transplantation revealed by single cell transcriptomics

genomics more details view paper
  • Downloaded 2,052 times
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    • Site-wide: 52,406
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Single-nucleus RNA-Seq reveals a new type of brown adipocyte regulating thermogenesis

cell biology more details view paper
  • Downloaded 2,037 times
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    • Site-wide: 8,693
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Multi-modal pooled Perturb-CITE-Seq screens in patient models define novel mechanisms of cancer immune evasion

genomics more details view paper
  • Downloaded 1,996 times
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    • Site-wide: 8,967
    • In genomics: 911
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    • Site-wide: 5,170
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    • Site-wide: 64,826

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

immunology more details view paper
  • Downloaded 1,988 times
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    • Site-wide: 9,025
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    • Site-wide: 4,926
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    • Site-wide: 4,775

Acquired FGFR and FGF alterations confer resistance to estrogen receptor (ER) targeted therapy in ER+ metastatic breast cancer

cancer biology more details view paper
  • Downloaded 1,982 times
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    • Site-wide: 9,066
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  • Year to date:
    • Site-wide: 12,635
  • Since beginning of last month:
    • Site-wide: 5,241

Single-cell multimodal profiling of proteins and chromatin accessibility using PHAGE-ATAC

genomics more details view paper
  • Downloaded 1,954 times
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    • Site-wide: 9,241
    • In genomics: 937
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    • Site-wide: 4,959
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    • Site-wide: 2,487

A quantitative model for characterizing the evolutionary history of mammalian gene expression

genomics more details view paper
  • Downloaded 1,942 times
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    • Site-wide: 9,308
    • In genomics: 945
  • Year to date:
    • Site-wide: 124,373
  • Since beginning of last month:
    • Site-wide: 78,121

Cumulus: a cloud-based data analysis framework for large-scale single-cell and single-nucleus RNA-seq

bioinformatics more details view paper
  • Downloaded 1,917 times
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    • Site-wide: 9,504
    • In bioinformatics: 1,093
  • Year to date:
    • Site-wide: 23,350
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    • Site-wide: 91,720

Combinatorial prediction of marker panels from single-cell transcriptomic data

bioinformatics more details view paper
  • Downloaded 1,891 times
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    • Site-wide: 9,704
    • In bioinformatics: 1,125
  • Year to date:
    • Site-wide: 82,627
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    • Site-wide: 110,164

MCMICRO: A scalable, modular image-processing pipeline for multiplexed tissue imaging

bioinformatics more details view paper
  • Downloaded 1,851 times
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    • Site-wide: 9,996
    • In bioinformatics: 1,151
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    • Site-wide: 1,488
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scSVA: an interactive tool for big data visualization and exploration in single-cell omics

bioinformatics more details view paper
  • Downloaded 1,771 times
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    • Site-wide: 10,681
    • In bioinformatics: 1,223
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GeNets: A unified web platform for network-based analyses of genomic data

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Opposing immune and genetic forces shape oncogenic programs in synovial sarcoma

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BROCKMAN: Deciphering variance in epigenomic regulators by k-mer factorization

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A cell-free antibody engineering platform rapidly generates SARS-CoV-2 neutralizing antibodies

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Genetic predisposition to myeloproliferative neoplasms implicates hematopoietic stem cell biology

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Rewiring of the cellular and inter-cellular landscape of the human colon during ulcerative colitis

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An endogenous glucocorticoid-cytokine signaling circuit promotes CD8+ T cell dysfunction in the tumor microenvironment

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Single cell profiling of immature human postnatal thymocytes resolves the complexity of intra-thymic lineage differentiation and thymus seeding precursors.

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L1CAM is not Associated with Extracellular Vesicles in Human Cerebrospinal Fluid or Plasma

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Multi-cellular communities are perturbed in the aging human brain and with Alzheimer's disease

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Three-dimensional spatial transcriptomics uncovers cell type dynamics in the rheumatoid arthritis synovium

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CELL ATLAS OF THE HUMAN FOVEA AND PERIPHERAL RETINA

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Shuffle-Seq: En masse combinatorial encoding for n-way genetic interaction screens

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Genetic analysis of isoform usage in the human anti-viral response reveals influenza-specific regulation of ERAP2 transcripts under balancing selection

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Cell Atlas of Aqueous Humor Outflow Pathways in Eyes of Humans and Four Model Species Provides Insights into Glaucoma Pathogenesis

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Conservation and divergence in modules of the transcriptional programs of the human and mouse immune systems

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Evolutionary analysis across mammals reveals distinct classes of long noncoding RNAs

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RAAS blockade, kidney disease, and expression of ACE2, the entry receptor for SARS-CoV-2, in kidney epithelial and endothelial cells

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Transcriptional mediators of treatment resistance in lethal prostate cancer

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Regulatory network controlling tumor-promoting inflammation in human cancers

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Dietary suppression of MHC-II expression in intestinal stem cells enhances intestinal tumorigenesis

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MAUDE: Inferring expression changes in sorting-based CRISPR screens

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GWAS of stool frequency reveals genes, pathways, and cell types relevant to human gastrointestinal motility and irritable bowel syndrome

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Parental-fetal interplay of immune genes leads to intrauterine growth restriction

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Obesity-instructed TREM2high macrophages identified by comparative analysis of diabetic mouse and human kidney at single cell resolution

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Pancreatic cancer risk predicted from disease trajectories using deep learning

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Intrinsic and extrinsic regulation of human fetal bone marrow haematopoiesis and perturbations in Down syndrome

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Hematopoiesis at single cell resolution spanning human development and maturation

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Targeted in silico characterization of fusion transcripts in tumor and normal tissues via FusionInspector

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