Author: Gad Getz

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Preprints

Analysis of protein-coding genetic variation in 60,706 humans

• Downloaded 22,457 times
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  • Site-wide: 497
  • In genomics: 16
• Year to date:
  • Site-wide: 39,293
• Since beginning of last month:
  • Site-wide: 46,632

The Repertoire of Mutational Signatures in Human Cancer

• Downloaded 20,723 times
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  • Site-wide: 554
  • In cancer biology: 2
• Year to date:
  • Site-wide: 16,181
• Since beginning of last month:
  • Site-wide: 9,119

Calling Somatic SNVs and Indels with Mutect2

• Downloaded 11,484 times
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  • Site-wide: 1,140
  • In bioinformatics: 61
• Year to date:
  • Site-wide: 478
• Since beginning of last month:
  • Site-wide: 212

The evolutionary history of 2,658 cancers

• Downloaded 9,814 times
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  • Site-wide: 1,373
  • In cancer biology: 9
• Year to date:
  • Site-wide: 69,565
• Since beginning of last month:
  • Site-wide: 45,669

The GTEx Consortium atlas of genetic regulatory effects across human tissues

• Downloaded 9,300 times
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  • Site-wide: 1,473
  • In genetics: 30
• Year to date:
  • Site-wide: 14,376
• Since beginning of last month:
  • Site-wide: 15,816

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

• Downloaded 7,494 times
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  • Site-wide: 1,960
  • In cell biology: 25
• Year to date:
  • Site-wide: 669
• Since beginning of last month:
  • Site-wide: 3,757

The whole-genome panorama of cancer drivers

• Downloaded 7,487 times
• Download rankings, all-time:
  • Site-wide: 1,964
  • In cancer biology: 18
• Year to date:
  • Site-wide: 12,546
• Since beginning of last month:
  • Site-wide: 8,578

Rapid and efficient analysis of 20,000 RNA-seq samples with Toil

• Downloaded 6,989 times
• Download rankings, all-time:
  • Site-wide: 2,170
  • In bioinformatics: 118
• Year to date:
  • Site-wide: 42,973
• Since beginning of last month:
  • Site-wide: 26,327

Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes

• Downloaded 6,615 times
• Download rankings, all-time:
  • Site-wide: 2,341
  • In cancer biology: 23
• Year to date:
  • Site-wide: 29,458
• Since beginning of last month:
  • Site-wide: 11,975

Discovery and characterization of coding and non-coding driver mutations in more than 2,500 whole cancer genomes

• Downloaded 5,907 times
• Download rankings, all-time:
  • Site-wide: 2,728
  • In genomics: 208
• Year to date:
  • Site-wide: 46,314
• Since beginning of last month:
  • Site-wide: 46,019

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

• Downloaded 5,489 times
• Download rankings, all-time:
  • Site-wide: 3,009
  • In cancer biology: 36
• Year to date:
  • Site-wide: 8,878
• Since beginning of last month:
  • Site-wide: 16,498

Comprehensive analysis of tumour initiation, spatial and temporal progression under multiple lines of treatment

• Downloaded 4,357 times
• Download rankings, all-time:
  • Site-wide: 4,119
  • In bioinformatics: 358
• Year to date:
  • Site-wide: 5,571
• Since beginning of last month:
  • Site-wide: 5,839

Tumor mutational landscape is a record of the pre-malignant state

• Downloaded 4,281 times
• Download rankings, all-time:
  • Site-wide: 4,223
  • In genomics: 392
• Year to date:
  • Site-wide: 18,489
• Since beginning of last month:
  • Site-wide: 10,117

A comprehensive analysis of RNA sequences reveals macroscopic somatic clonal expansion across normal tissues

• Downloaded 3,578 times
• Download rankings, all-time:
  • Site-wide: 5,475
  • In genomics: 496
• Year to date:
  • Site-wide: 112,092
• Since beginning of last month:
  • Site-wide: 42,800

Scaling computational genomics to millions of individuals with GPUs

• Downloaded 3,503 times
• Download rankings, all-time:
  • Site-wide: 5,664
  • In genomics: 514
• Year to date:
  • Site-wide: 92,007
• Since beginning of last month:
  • Site-wide: 62,648

A deep learning system can accurately classify primary and metastatic cancers based on patterns of passenger mutations

• Downloaded 3,453 times
• Download rankings, all-time:
  • Site-wide: 5,792
  • In cancer biology: 78
• Year to date:
  • Site-wide: 72,570
• Since beginning of last month:
  • Site-wide: 39,124

WRN Helicase is a Synthetic Lethal Target in Microsatellite Unstable Cancers

• Downloaded 3,177 times
• Download rankings, all-time:
  • Site-wide: 6,567
  • In cancer biology: 87
• Year to date:
  • Site-wide: 60,056
• Since beginning of last month:
  • Site-wide: 38,703

Cell type specific genetic regulation of gene expression across human tissues

• Downloaded 2,971 times
• Download rankings, all-time:
  • Site-wide: 7,198
  • In genomics: 672
• Year to date:
  • Site-wide: 54,269
• Since beginning of last month:
  • Site-wide: 47,495

Large-Scale Uniform Analysis of Cancer Whole Genomes in Multiple Computing Environments

• Downloaded 2,622 times
• Download rankings, all-time:
  • Site-wide: 8,650
  • In genomics: 817
• Year to date:
  • Site-wide: 93,023
• Since beginning of last month:
  • Site-wide: 161,859

Passenger mutations in 2500 cancer genomes: Overall molecular functional impact and consequences

• Downloaded 2,265 times
• Download rankings, all-time:
  • Site-wide: 10,796
  • In genomics: 978
• Year to date:
  • Site-wide: 123,977
• Since beginning of last month:
  • Site-wide: 54,829

A comparative analysis of network mutation burdens across 21 tumor types augments discovery from cancer genomes

• Downloaded 2,252 times
• Download rankings, all-time:
  • Site-wide: 10,885
  • In cancer biology: 183
• Year to date:
  • Site-wide: 167,397
• Since beginning of last month:
  • Site-wide: 182,171

Clustering of Type 2 Diabetes Genetic Loci by Multi-Trait Associations Identifies Disease Mechanisms and Subtypes

• Downloaded 2,217 times
• Download rankings, all-time:
  • Site-wide: 11,153
  • In genetics: 415
• Year to date:
  • Site-wide: 115,728
• Since beginning of last month:
  • Site-wide: 56,770

Passenger Hotspot Mutations in Cancer

• Downloaded 2,136 times
• Download rankings, all-time:
  • Site-wide: 11,824
  • In genomics: 1,072
• Year to date:
  • Site-wide: 69,458
• Since beginning of last month:
  • Site-wide: 45,926

Pathway and network analysis of more than 2,500 whole cancer genomes

• Downloaded 1,687 times
• Download rankings, all-time:
  • Site-wide: 16,862
  • In cancer biology: 347
• Year to date:
  • Site-wide: 174,981
• Since beginning of last month:
  • Site-wide: 119,737

The Tangent copy-number inference pipeline for cancer genome analyses

• Downloaded 1,317 times
• Download rankings, all-time:
  • Site-wide: 25,010
  • In bioinformatics: 2,553
• Year to date:
  • Site-wide: 69,478
• Since beginning of last month:
  • Site-wide: None

Integrative Analysis of Checkpoint Blockade Response in Advanced Non-Small Cell Lung Cancer

• Downloaded 1,248 times
• Download rankings, all-time:
  • Site-wide: 27,272
  • In genomics: 2,524
• Year to date:
  • Site-wide: 2,399
• Since beginning of last month:
  • Site-wide: 8,990

Latent human herpesvirus 6 is reactivated in chimeric antigen receptor T cells

• Downloaded 1,196 times
• Download rankings, all-time:
  • Site-wide: 29,096
  • In immunology: None
• Year to date:
  • Site-wide: 2,570
• Since beginning of last month:
  • Site-wide: 2,111

Framework For Quality Assessment Of Whole Genome, Cancer Sequences

• Downloaded 1,181 times
• Download rankings, all-time:
  • Site-wide: 29,696
  • In genomics: 2,433
• Year to date:
  • Site-wide: 155,123
• Since beginning of last month:
  • Site-wide: 79,193

Single Cell Characterization of Myeloma and its Precursor Conditions Reveals Transcriptional Signatures of Early Tumorigenesis

• Downloaded 1,066 times
• Download rankings, all-time:
  • Site-wide: 34,812
  • In oncology: 72
• Year to date:
  • Site-wide: 3,093
• Since beginning of last month:
  • Site-wide: 4,242

Expanding discovery from cancer genomes by integrating protein network analyses with in vivo tumorigenesis assays

• Downloaded 1,033 times
• Download rankings, all-time:
  • Site-wide: 36,535
  • In cancer biology: 930
• Year to date:
  • Site-wide: 178,824
• Since beginning of last month:
  • Site-wide: 71,308

Distinct cellular dynamics associated with response to CAR-T therapy for refractory B-cell lymphoma

• Downloaded 869 times
• Download rankings, all-time:
  • Site-wide: 47,548
  • In oncology: 187
• Year to date:
  • Site-wide: 4,300
• Since beginning of last month:
  • Site-wide: 3,380

Detecting cancer vulnerabilities through gene networks under purifying selection in 4,700 cancer genomes

• Downloaded 856 times
• Download rankings, all-time:
  • Site-wide: 48,712
  • In bioinformatics: 4,760
• Year to date:
  • Site-wide: 164,877
• Since beginning of last month:
  • Site-wide: 128,013

Case-control analysis identifies shared properties of rare germline variation in cancer predisposing genes

• Downloaded 770 times
• Download rankings, all-time:
  • Site-wide: 56,991
  • In genetics: 2,181
• Year to date:
  • Site-wide: 200,920
• Since beginning of last month:
  • Site-wide: 127,029

Distinct evolutionary paths in chronic lymphocytic leukemia during resistance to graft-versus-leukemia

• Downloaded 583 times
• Download rankings, all-time:
  • Site-wide: 83,295
  • In cancer biology: 2,365
• Year to date:
  • Site-wide: 163,851
• Since beginning of last month:
  • Site-wide: 147,054

High-resolution lung adenocarcinoma expression subtypes identify tumors with dependencies on MET, CDK4, CDK6, and PD-L1

• Downloaded 569 times
• Download rankings, all-time:
  • Site-wide: 86,031
  • In cancer biology: 3,113
• Year to date:
  • Site-wide: 8,654
• Since beginning of last month:
  • Site-wide: 25,652

Genetic Subtypes of Smoldering Multiple Myeloma are associated with Distinct Pathogenic Phenotypes and Clinical Outcomes

• Downloaded 332 times
• Download rankings, all-time:
  • Site-wide: 144,913
  • In cancer biology: 4,326
• Year to date:
  • Site-wide: 64,926
• Since beginning of last month:
  • Site-wide: 103,486