Author: Edwin Cuppen

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Preprints

Pan-cancer whole genome analyses of metastatic solid tumors

• Downloaded 5,844 times
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  • Site-wide: 1,493
  • In cancer biology: 18
• Year to date:
  • Site-wide: 34,683
• Since beginning of last month:
  • Site-wide: 34,683

Long-term expanding human airway organoids for disease modelling.

• Downloaded 5,478 times
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  • Site-wide: 1,641
  • In cell biology: 22
• Year to date:
  • Site-wide: 17,482
• Since beginning of last month:
  • Site-wide: 17,482

SARS-CoV-2 Productively Infects Human Gut Enterocytes

• Downloaded 3,634 times
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  • Site-wide: 2,925
  • In cell biology: 50
• Year to date:
  • Site-wide: 15,577
• Since beginning of last month:
  • Site-wide: 15,577

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

• Downloaded 3,455 times
• Download rankings, all-time:
  • Site-wide: 3,155
  • In genomics: 363
• Year to date:
  • Site-wide: 20,150
• Since beginning of last month:
  • Site-wide: 20,150

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

• Downloaded 3,170 times
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  • Site-wide: 3,568
  • In cancer biology: 55
• Year to date:
  • Site-wide: 44,566
• Since beginning of last month:
  • Site-wide: 44,566

MutationalPatterns: comprehensive genome-wide analysis of mutational processes

• Downloaded 2,677 times
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  • Site-wide: 4,521
  • In bioinformatics: 499
• Year to date:
  • Site-wide: 36,458
• Since beginning of last month:
  • Site-wide: 36,458

Mapping And Phasing Of Structural Variation In Patient Genomes Using Nanopore Sequencing

• Downloaded 2,471 times
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  • Site-wide: 5,100
  • In genomics: 601
• Year to date:
  • Site-wide: 111,320
• Since beginning of last month:
  • Site-wide: 111,320

Pan-cancer landscape of homologous recombination deficiency

• Downloaded 2,401 times
• Download rankings, all-time:
  • Site-wide: 5,322
  • In cancer biology: 81
• Year to date:
  • Site-wide: 4,460
• Since beginning of last month:
  • Site-wide: 4,460

Learning mutational signatures and their multidimensional genomic properties with TensorSignatures

• Downloaded 1,988 times
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  • Site-wide: 6,957
  • In cancer biology: 113
• Year to date:
  • Site-wide: 5,400
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  • Site-wide: 5,400

The genomic landscape of metastatic castration-resistant prostate cancers reveals multiple distinct genotypes with potential clinical impact

• Downloaded 1,812 times
• Download rankings, all-time:
  • Site-wide: 8,006
  • In cancer biology: 139
• Year to date:
  • Site-wide: 22,632
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  • Site-wide: 22,632

GRIDSS, PURPLE, LINX: Unscrambling the tumor genome via integrated analysis of structural variation and copy number

• Downloaded 1,730 times
• Download rankings, all-time:
  • Site-wide: 8,620
  • In bioinformatics: 1,057
• Year to date:
  • Site-wide: 12,327
• Since beginning of last month:
  • Site-wide: 12,327

Deficiency of nucleotide excision repair explains mutational signature observed in cancer

• Downloaded 1,206 times
• Download rankings, all-time:
  • Site-wide: 14,765
  • In molecular biology: 414
• Year to date:
  • Site-wide: 66,115
• Since beginning of last month:
  • Site-wide: 66,115

5-Fluorouracil treatment induces characteristic T>G mutations in human cancer

• Downloaded 615 times
• Download rankings, all-time:
  • Site-wide: 38,377
  • In cancer biology: 1,046
• Year to date:
  • Site-wide: 108,358
• Since beginning of last month:
  • Site-wide: 108,358

Sperm DNA damage causes genomic instability in early embryonic development

• Downloaded 564 times
• Download rankings, all-time:
  • Site-wide: 42,735
  • In developmental biology: 1,002
• Year to date:
  • Site-wide: 121,135
• Since beginning of last month:
  • Site-wide: 121,135

Mutational impact of culturing human pluripotent and adult stem cells

• Downloaded 519 times
• Download rankings, all-time:
  • Site-wide: 47,251
  • In genomics: 3,801
• Year to date:
  • Site-wide: 76,279
• Since beginning of last month:
  • Site-wide: 76,279

GRIDSS2: comprehensive characterisation of somatic structural variation using single breakend variants and structural variant phasing

• Downloaded 498 times
• Download rankings, all-time:
  • Site-wide: 49,659
  • In bioinformatics: 5,161
• Year to date:
  • Site-wide: 27,928
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  • Site-wide: 27,928

Patient-derived ovarian cancer organoids mimic clinical response and exhibit heterogeneous inter- and intrapatient drug responses

• Downloaded 494 times
• Download rankings, all-time:
  • Site-wide: 50,133
  • In oncology: 52
• Year to date:
  • Site-wide: 59,556
• Since beginning of last month:
  • Site-wide: 59,556

Micro-costing Diagnostics in Oncology: From Single-Gene Testing to Whole Genome Sequencing

• Downloaded 484 times
• Download rankings, all-time:
  • Site-wide: 51,285
  • In genetic and genomic medicine: 149
• Year to date:
  • Site-wide: 23,827
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  • Site-wide: 23,827

A multi-platform reference for somatic structural variation detection

• Downloaded 449 times
• Download rankings, all-time:
  • Site-wide: 55,726
  • In genomics: 4,244
• Year to date:
  • Site-wide: 8,796
• Since beginning of last month:
  • Site-wide: 8,796

Early divergence of mutational mechanisms drives genetic heterogeneity of fetal tissues

• Downloaded 443 times
• Download rankings, all-time:
  • Site-wide: 56,496
  • In genomics: 4,277
• Year to date:
  • Site-wide: 120,892
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  • Site-wide: 120,892

A system-wide approach to monitor responses to synergistic BRAF and EGFR inhibition in colorectal cancer cells

• Downloaded 434 times
• Download rankings, all-time:
  • Site-wide: 57,754
  • In cancer biology: 1,627
• Year to date:
  • Site-wide: 108,713
• Since beginning of last month:
  • Site-wide: 108,713

Distinct genomic profiles are associated with treatment response and survival in ovarian cancer

• Downloaded 433 times
• Download rankings, all-time:
  • Site-wide: 57,833
  • In genetic and genomic medicine: 168
• Year to date:
  • Site-wide: 22,778
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  • Site-wide: 22,778

Prioritization of genes driving congenital phenotypes of patients with de novo genomic structural variants

• Downloaded 375 times
• Download rankings, all-time:
  • Site-wide: 66,626
  • In genomics: 4,732
• Year to date:
  • Site-wide: 90,105
• Since beginning of last month:
  • Site-wide: 90,105

Mutational impact of chronic alcohol use on stem cells in cirrhotic liver

• Downloaded 363 times
• Download rankings, all-time:
  • Site-wide: 68,623
  • In cancer biology: 1,987
• Year to date:
  • Site-wide: 53,273
• Since beginning of last month:
  • Site-wide: 53,273

Unscrambling cancer genomes via integrated analysis of structural variation and copy number

• Downloaded 259 times
• Download rankings, all-time:
  • Site-wide: 88,719
  • In cancer biology: 2,673
• Year to date:
  • Site-wide: 20,531
• Since beginning of last month:
  • Site-wide: 20,531

Clinical validation of Whole Genome Sequencing for cancer diagnostics

• Downloaded 251 times
• Download rankings, all-time:
  • Site-wide: 90,369
  • In genetic and genomic medicine: 317
• Year to date:
  • Site-wide: 32,715
• Since beginning of last month:
  • Site-wide: 32,715