Author: Altuna Akalin

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Preprints

Bulk and single-cell gene expression profiling of SARS-CoV-2 infected human cell lines identifies molecular targets for therapeutic intervention

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  • Site-wide: 1,610
  • In systems biology: 21
• Year to date:
  • Site-wide: 1,483
• Since beginning of last month:
  • Site-wide: 3,067

Strategies for analyzing bisulfite sequencing data

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  • Site-wide: 3,040
  • In bioinformatics: 328
• Year to date:
  • Site-wide: 22,827
• Since beginning of last month:
  • Site-wide: 33,480

Functional Annotation of Human Long Non-Coding RNAs via Molecular Phenotyping

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  • Site-wide: 4,220
  • In genomics: 502
• Year to date:
  • Site-wide: 32,565
• Since beginning of last month:
  • Site-wide: 52,476

Reproducible genomics analysis pipelines with GNU Guix

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  • Site-wide: 5,730
  • In bioinformatics: 697
• Year to date:
  • Site-wide: 34,389
• Since beginning of last month:
  • Site-wide: 35,281

Evaluation of colorectal cancer subtypes and cell lines using deep learning

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  • Site-wide: 6,248
  • In bioinformatics: 767
• Year to date:
  • Site-wide: 33,146
• Since beginning of last month:
  • Site-wide: 34,998

HOT or not: Examining the basis of high-occupancy target regions

• Downloaded 1,529 times
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  • Site-wide: 9,818
  • In genomics: 1,110
• Year to date:
  • Site-wide: 89,499
• Since beginning of last month:
  • Site-wide: 104,252

Single-nucleus transcriptomics reveals functional compartmentalization in syncytial skeletal muscle cells

• Downloaded 1,495 times
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  • Site-wide: 10,119
  • In developmental biology: 145
• Year to date:
  • Site-wide: 11,702
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  • Site-wide: 9,687

Single-cell RNA-sequencing of Herpes simplex virus 1-infected cells identifies NRF2 activation as an antiviral program

• Downloaded 1,342 times
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  • Site-wide: 11,910
  • In systems biology: 238
• Year to date:
  • Site-wide: 67,450
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  • Site-wide: 77,558

Cell-type specialization in the brain is encoded by specific long-range chromatin topologies

• Downloaded 1,268 times
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  • Site-wide: 12,963
  • In molecular biology: 359
• Year to date:
  • Site-wide: 17,066
• Since beginning of last month:
  • Site-wide: 17,258

Janggu - Deep learning for genomics

• Downloaded 1,090 times
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  • Site-wide: 16,309
  • In bioinformatics: 2,028
• Year to date:
  • Site-wide: 30,882
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  • Site-wide: 33,451

Mutations In Disordered Regions Cause Disease By Creating Endocytosis Motifs

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  • Site-wide: 22,235
  • In biochemistry: 498
• Year to date:
  • Site-wide: 45,180
• Since beginning of last month:
  • Site-wide: 65,866

FACT sets a barrier for cell fate reprogramming in C. elegans and Human

• Downloaded 879 times
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  • Site-wide: 22,381
  • In developmental biology: 440
• Year to date:
  • Site-wide: 89,230
• Since beginning of last month:
  • Site-wide: 119,375

Single-cell-resolved dynamics of chromatin architecture delineate cell and regulatory states in wildtype and cloche/npas4l mutant zebrafish embryos

• Downloaded 781 times
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  • Site-wide: 26,421
  • In genomics: 2,516
• Year to date:
  • Site-wide: 9,748
• Since beginning of last month:
  • Site-wide: 12,833

netSmooth: Network-smoothing based imputation for single cell RNA-seq

• Downloaded 763 times
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  • Site-wide: 27,262
  • In bioinformatics: 3,236
• Year to date:
  • Site-wide: 65,329
• Since beginning of last month:
  • Site-wide: 99,597

Parallel genetics of regulatory sequences in vivo

• Downloaded 465 times
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  • Site-wide: 51,168
  • In genetics: 2,474
• Year to date:
  • Site-wide: 32,458
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  • Site-wide: 16,084

A novel IKK- and proteasome-independent mechanism of RelA activation triggers senescence associated secretome via transcriptional repression of NFKBIA

• Downloaded 340 times
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  • Site-wide: 69,398
  • In cell biology: 3,167
• Year to date:
  • Site-wide: 40,040
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  • Site-wide: 46,706

Long non-coding RNAs defining major subtypes of B cell precursor acute lymphoblastic leukemia

• Downloaded 336 times
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  • Site-wide: 70,133
  • In cancer biology: 2,052
• Year to date:
  • Site-wide: 74,355
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  • Site-wide: 86,871

The conserved histone chaperone LIN-53 links lifespan and healthspan regulation in C. elegans

• Downloaded 322 times
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  • Site-wide: 72,642
  • In cell biology: 3,340
• Year to date:
  • Site-wide: 65,532
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  • Site-wide: 112,614

The SEQC2 Epigenomics Quality Control (EpiQC) Study: Comprehensive Characterization of Epigenetic Methods, Reproducibility, and Quantification

• Downloaded 259 times
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  • Site-wide: 84,967
  • In genomics: 5,419
• Year to date:
  • Site-wide: 3,058
• Since beginning of last month:
  • Site-wide: 2,224

Pdap1 protects mature B lymphocytes from stress-induced cell death and promotes antibody gene diversification

• Downloaded 236 times
• Download rankings, all-time:
  • Site-wide: 89,777
  • In immunology: 2,425
• Year to date:
  • Site-wide: 74,510
• Since beginning of last month:
  • Site-wide: 108,764