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Author: Ferhat Ay

Rankings

  • All-time downloads: 32,880 (rank: 6,761 )
  • Categories:
    • allergy and immunology: 113 (rank: 3,439 (tie) )
    • bioinformatics: 8,375 (rank: 1,436 )
    • genomics: 13,294 (rank: 1,541 )
    • immunology: 7,351 (rank: 1,715 )
    • molecular biology: 2,213 (rank: 2,712 (tie) )
    • systems biology: 1,534 (rank: 3,397 )

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Preprints

An Integrative Framework For Detecting Structural Variations In Cancer Genomes

genomics more details view paper
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    • Site-wide: 3,483
    • In genomics: 333
  • Year to date:
    • Site-wide: 109,128
  • Since beginning of last month:
    • Site-wide: 94,601

Single-cell transcriptomic analysis of SARS-CoV-2 reactive CD4+ T cells

immunology more details view paper
  • Downloaded 3,812 times
  • Download rankings, all-time:
    • Site-wide: 4,079
    • In immunology: 152
  • Year to date:
    • Site-wide: 6,436
  • Since beginning of last month:
    • Site-wide: 15,204

Measuring the reproducibility and quality of Hi-C data

genomics more details view paper
  • Downloaded 2,786 times
  • Download rankings, all-time:
    • Site-wide: 6,366
    • In genomics: 626
  • Year to date:
    • Site-wide: 27,104
  • Since beginning of last month:
    • Site-wide: 116,797

FitHiChIP: Identification of significant chromatin contacts from HiChIP data

bioinformatics more details view paper
  • Downloaded 2,710 times
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    • Site-wide: 6,633
    • In bioinformatics: 659
  • Year to date:
    • Site-wide: 16,277
  • Since beginning of last month:
    • Site-wide: 94,546

Identification of cis elements for spatio-temporal control of DNA replication

molecular biology more details view paper
  • Downloaded 1,907 times
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    • Site-wide: 11,153
    • In molecular biology: 288
  • Year to date:
    • Site-wide: 51,762
  • Since beginning of last month:
    • Site-wide: 93,155

Using DNase Hi-C techniques to map global and local three-dimensional genome architecture at high resolution

genomics more details view paper
  • Downloaded 1,517 times
  • Download rankings, all-time:
    • Site-wide: 15,745
    • In genomics: 1,506
  • Year to date:
    • Site-wide: 26,461
  • Since beginning of last month:
    • Site-wide: 94,744

Joint annotation of chromatin state and chromatin conformation reveals relationships among domain types and identifies domains of cell type-specific expression

genomics more details view paper
  • Downloaded 1,512 times
  • Download rankings, all-time:
    • Site-wide: 15,819
    • In genomics: 1,517
  • Year to date:
    • Site-wide: 69,882
  • Since beginning of last month:
    • Site-wide: 30,792

Integrative transcriptomic analysis of SLE reveals IFN-driven cross-talk between immune cells

genomics more details view paper
  • Downloaded 1,439 times
  • Download rankings, all-time:
    • Site-wide: 17,082
    • In genomics: 1,616
  • Year to date:
    • Site-wide: 81,407
  • Since beginning of last month:
    • Site-wide: 71,336

Severely ill COVID-19 patients display augmented functional properties in SARS-CoV-2-reactive CD8+ T cells

immunology more details view paper
  • Downloaded 1,428 times
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    • Site-wide: 17,282
    • In immunology: 612
  • Year to date:
    • Site-wide: 42,699
  • Since beginning of last month:
    • Site-wide: 128,808

Generative Modeling of Multi-mapping Reads with mHi-C Advances Analysis of High Throughput Genome-wide Conformation Capture Studies

bioinformatics more details view paper
  • Downloaded 1,398 times
  • Download rankings, all-time:
    • Site-wide: 17,835
    • In bioinformatics: 1,996
  • Year to date:
    • Site-wide: 69,619
  • Since beginning of last month:
    • Site-wide: 94,996

COVID-19 genetic risk variants are associated with expression of multiple genes in diverse immune cell types.

immunology more details view paper
  • Downloaded 1,231 times
  • Download rankings, all-time:
    • Site-wide: 21,572
    • In immunology: 760
  • Year to date:
    • Site-wide: 22,438
  • Since beginning of last month:
    • Site-wide: 22,340

NSD2 overexpression drives clustered chromatin and transcriptional changes in a subset of insulated domains

genomics more details view paper
  • Downloaded 1,209 times
  • Download rankings, all-time:
    • Site-wide: 22,208
    • In genomics: 2,036
  • Year to date:
    • Site-wide: 76,048
  • Since beginning of last month:
    • Site-wide: 66,984

Mustache: Multi-scale Detection of Chromatin Loops from Hi-C and Micro-C Maps using Scale-Space Representation

bioinformatics more details view paper
  • Downloaded 991 times
  • Download rankings, all-time:
    • Site-wide: 29,955
    • In bioinformatics: 3,278
  • Year to date:
    • Site-wide: 49,741
  • Since beginning of last month:
    • Site-wide: 105,373

Identification of copy number variations and translocations in cancer cells from Hi-C data

bioinformatics more details view paper
  • Downloaded 931 times
  • Download rankings, all-time:
    • Site-wide: 32,880
    • In bioinformatics: 3,554
  • Year to date:
    • Site-wide: None
  • Since beginning of last month:
    • Site-wide: 122,121

ExTraMapper: Exon- and Transcript-level mappings for orthologous gene pairs

bioinformatics more details view paper
  • Downloaded 924 times
  • Download rankings, all-time:
    • Site-wide: 33,263
    • In bioinformatics: 3,584
  • Year to date:
    • Site-wide: 34,493
  • Since beginning of last month:
    • Site-wide: 98,065

TET enzymes augment AID expression via 5hmC modifications at the Aicda superenhancer

immunology more details view paper
  • Downloaded 880 times
  • Download rankings, all-time:
    • Site-wide: 35,672
    • In immunology: 1,179
  • Year to date:
    • Site-wide: 55,928
  • Since beginning of last month:
    • Site-wide: 40,414

Replication Timing Networks: a novel class of gene regulatory networks

systems biology more details view paper
  • Downloaded 873 times
  • Download rankings, all-time:
    • Site-wide: 36,061
    • In systems biology: 731
  • Year to date:
    • Site-wide: None
  • Since beginning of last month:
    • Site-wide: 51,039

dcHiC: differential compartment analysis of Hi-C datasets

bioinformatics more details view paper
  • Downloaded 815 times
  • Download rankings, all-time:
    • Site-wide: 39,840
    • In bioinformatics: 4,228
  • Year to date:
    • Site-wide: 10,826
  • Since beginning of last month:
    • Site-wide: 17,351

Changes in genome organization of parasite-specific gene families during the Plasmodium transmission stages

systems biology more details view paper
  • Downloaded 661 times
  • Download rankings, all-time:
    • Site-wide: 53,430
    • In systems biology: 1,124
  • Year to date:
    • Site-wide: 130,401
  • Since beginning of last month:
    • Site-wide: 142,277

Selfish: Discovery of Differential Chromatin Interactions via a Self-Similarity Measure

bioinformatics more details view paper
  • Downloaded 606 times
  • Download rankings, all-time:
    • Site-wide: 59,916
    • In bioinformatics: 5,863
  • Year to date:
    • Site-wide: None
  • Since beginning of last month:
    • Site-wide: 147,313

Third generation sequencing revises the molecular karyotype for Toxoplasma gondii and identifies emerging copy number variants in sexual recombinants

genomics more details view paper
  • Downloaded 573 times
  • Download rankings, all-time:
    • Site-wide: 64,349
    • In genomics: 4,541
  • Year to date:
    • Site-wide: 116,147
  • Since beginning of last month:
    • Site-wide: 107,694

Sox2-RNA mechanisms of chromosome topological control in developing forebrain

molecular biology more details view paper
  • Downloaded 306 times
  • Download rankings, all-time:
    • Site-wide: 118,578
    • In molecular biology: 3,541
  • Year to date:
    • Site-wide: 83,890
  • Since beginning of last month:
    • Site-wide: 136,251

Deep Learning-Aided Diagnosis of Autoimmune Blistering Diseases

allergy and immunology more details view paper
  • Downloaded 113 times
  • Download rankings, all-time:
    • Site-wide: 163,796
    • In allergy and immunology: 260
  • Year to date:
    • Site-wide: 25,148
  • Since beginning of last month:
    • Site-wide: 8,012

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