Author: Eric W. Deutsch

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Preprints

Reproducible big data science: A case study in continuous FAIRness

• Downloaded 2,003 times
• Download rankings, all-time:
  • Site-wide: 11,859
  • In bioinformatics: 1,203
• Year to date:
  • Site-wide: 103,069
• Since beginning of last month:
  • Site-wide: 102,075

Mass Spectrometry-Based Plasma Proteomics: Considerations from Sample Collection to Achieving Translational Data

• Downloaded 1,513 times
• Download rankings, all-time:
  • Site-wide: 18,085
  • In molecular biology: 471
• Year to date:
  • Site-wide: 58,909
• Since beginning of last month:
  • Site-wide: 34,802

Fast and simple comparison of semi-structured data, with emphasis on electronic health records

• Downloaded 1,475 times
• Download rankings, all-time:
  • Site-wide: 18,800
  • In bioinformatics: 2,019
• Year to date:
  • Site-wide: 64,494
• Since beginning of last month:
  • Site-wide: 71,284

Omics Discovery Index - Discovering and Linking Public Omics Datasets

• Downloaded 1,113 times
• Download rankings, all-time:
  • Site-wide: 29,029
  • In bioinformatics: 2,944
• Year to date:
  • Site-wide: 157,720
• Since beginning of last month:
  • Site-wide: 168,204

A wide-ranging Pseudomonas aeruginosa PeptideAtlas build: a useful proteomic resource for a versatile pathogen.

• Downloaded 831 times
• Download rankings, all-time:
  • Site-wide: 44,891
  • In microbiology: 2,594
• Year to date:
  • Site-wide: 94,988
• Since beginning of last month:
  • Site-wide: 61,347

Human Proteome Project Mass Spectrometry Data Interpretation Guidelines 3.0

• Downloaded 785 times
• Download rankings, all-time:
  • Site-wide: 48,795
  • In bioinformatics: 4,720
• Year to date:
  • Site-wide: 115,663
• Since beginning of last month:
  • Site-wide: 126,306

PTMProphet: Fast and Accurate Mass Modification Localization for the Trans-Proteomic Pipeline

• Downloaded 764 times
• Download rankings, all-time:
  • Site-wide: 50,738
  • In bioinformatics: 4,930
• Year to date:
  • Site-wide: 115,219
• Since beginning of last month:
  • Site-wide: 92,748

Proteomics Standards Initiative Extended FASTA Format (PEFF)

• Downloaded 710 times
• Download rankings, all-time:
  • Site-wide: 56,161
  • In bioinformatics: 5,362
• Year to date:
  • Site-wide: 93,214
• Since beginning of last month:
  • Site-wide: 114,209

mzMLb: a future-proof raw mass spectrometry data format based on standards-compliant mzML and optimized for speed and storage requirements

• Downloaded 695 times
• Download rankings, all-time:
  • Site-wide: 57,989
  • In bioinformatics: 5,462
• Year to date:
  • Site-wide: 84,303
• Since beginning of last month:
  • Site-wide: 123,337

RTX-KG2: a system for building a semantically standardized knowledge graph for translational biomedicine

• Downloaded 604 times
• Download rankings, all-time:
  • Site-wide: 69,845
  • In bioinformatics: 10,360
• Year to date:
  • Site-wide: 7,326
• Since beginning of last month:
  • Site-wide: 9,755

Universal Spectrum Identifier for mass spectra

• Downloaded 594 times
• Download rankings, all-time:
  • Site-wide: 71,470
  • In bioinformatics: 6,472
• Year to date:
  • Site-wide: 83,939
• Since beginning of last month:
  • Site-wide: 95,948

A proteomics sample metadata representation for multiomics integration, and big data analysis.

• Downloaded 582 times
• Download rankings, all-time:
  • Site-wide: 73,287
  • In bioinformatics: 6,712
• Year to date:
  • Site-wide: 77,294
• Since beginning of last month:
  • Site-wide: 79,992

The Arabidopsis thaliana PeptideAtlas; harnessing world-wide proteomics data for a comprehensive community proteomics resource

• Downloaded 527 times
• Download rankings, all-time:
  • Site-wide: 82,668
  • In plant biology: 2,103
• Year to date:
  • Site-wide: 68,842
• Since beginning of last month:
  • Site-wide: 45,672

Profiling the Human Phosphoproteome to Estimate the True Extent of Protein Phosphorylation

• Downloaded 512 times
• Download rankings, all-time:
  • Site-wide: 85,617
  • In bioinformatics: 7,688
• Year to date:
  • Site-wide: 63,809
• Since beginning of last month:
  • Site-wide: 68,805

The proBAM and proBed standard formats: enabling a seamless integration of genomics and proteomics data.

• Downloaded 505 times
• Download rankings, all-time:
  • Site-wide: 86,926
  • In bioinformatics: 7,304
• Year to date:
  • Site-wide: 180,462
• Since beginning of last month:
  • Site-wide: 168,472

Universal Spectrum Explorer: A standalone (web-)application for cross-resource spectrum comparison

• Downloaded 501 times
• Download rankings, all-time:
  • Site-wide: 87,629
  • In bioinformatics: 7,864
• Year to date:
  • Site-wide: 73,219
• Since beginning of last month:
  • Site-wide: 52,374

BDQC: a general-purpose analytics tool for domain-blind validation of Big Data

• Downloaded 444 times
• Download rankings, all-time:
  • Site-wide: 100,089
  • In bioinformatics: 8,197
• Year to date:
  • Site-wide: 150,132
• Since beginning of last month:
  • Site-wide: 109,892

A method for independent estimation of false localisation rate for phosphoproteomics

• Downloaded 253 times
• Download rankings, all-time:
  • Site-wide: 152,579
  • In bioinformatics: 11,608
• Year to date:
  • Site-wide: 61,583
• Since beginning of last month:
  • Site-wide: 50,577

A comprehensive evaluation of consensus spectrum generation methods in proteomics

• Downloaded 235 times
• Download rankings, all-time:
  • Site-wide: 157,800
  • In bioinformatics: 12,027
• Year to date:
  • Site-wide: 15,897
• Since beginning of last month:
  • Site-wide: 65,730