James C. Wright

发表

Improving GENCODE reference gene annotation using a high-stringency proteogenomics workflow

James C. Wright, Jonathan M. Mudge, Hendrik Weisser, 2016, Nature Communications.

POL Pier Damage Investigation and Recommendations

James C. Wright, Chinymiim Chern, 1980 .

Chapter 4. PSM Scoring and Validation

James C. Wright, Jyoti S. Choudhary, 2016, Proteome Informatics.

The OMSSAPercolator: An automated tool to validate OMSSA results

Xun Xu, Guilin Li, James C. Wright, 2014, Proteomics.

Discovery of high-confidence human protein-coding genes and exons by whole-genome PhyloCSF helps elucidate 118 GWAS loci

James C. Wright, Jonathan M. Mudge, Robert M. Waterhouse, 2019, Genome research.

Shotgun proteomics aids discovery of novel protein-coding genes, alternative splicing, and "resurrected" pseudogenes in the mouse genome.

James C. Wright, J. Harrow, A. Frankish, 2011, Genome research.

Flexible Data Analysis Pipeline for High-Confidence Proteogenomics

James C. Wright, Jonathan M. Mudge, Hendrik Weisser, 2016, Journal of proteome research.

Evidence for a novel overlapping coding sequence in POLG initiated at a CUG start codon

James C. Wright, Jonathan M. Mudge, Manolis Kellis, 2020, BMC Genetics.

Genomic Determinants of Protein Abundance Variation in Colorectal Cancer Cells

Rodrigo Dienstmann, Justin Guinney, Julio Saez-Rodriguez, 2016, bioRxiv.

DecoyPyrat: Fast Non-redundant Hybrid Decoy Sequence Generation for Large Scale Proteomics.

James C. Wright, Jyoti S. Choudhary, 2016, Journal of proteomics & bioinformatics.

Confident and sensitive phosphoproteomics using combinations of collision induced dissociation and electron transfer dissociation☆

James C. Wright, Jyoti S. Choudhary, Julian C. Rayner, 2014, Journal of proteomics.

Long-Term Controlled Delivery of Therapeutic Agents via an Implantable Osmotically Driven System: The DUROS Implant

James C. Wright, Anne E. Chester, R. Skowronski, 2002 .

Bioinformatics in Animal Proteomics

Andrew R. Jones, James C. Wright, S. Hubbard, 2011 .

Exploiting proteomic data for genome annotation and gene model validation in Aspergillus niger

James C. Wright, S. Hubbard, R. Beynon, 2009, BMC Genomics.

The EN-TEx resource of multi-tissue personal epigenomes & variant-impact models

William Stafford Noble, James C. Wright, Jacob M. Schreiber, 2022, Cell.

GENCODE: reference annotation for the human and mouse genomes in 2023

James C. Wright, Jonathan M. Mudge, Andrew D. Yates, 2022, Nucleic Acids Res..

The Citrobacter rodentium type III secretion system effector EspO affects mucosal damage repair and antimicrobial responses

James C. Wright, M. Pevsner-Fischer, E. Elinav, 2018, PLoS pathogens.

Interferon-driven alterations of the host’s amino acid metabolism in the pathogenesis of typhoid fever

James C. Wright, O. Ramilo, A. Mejias, 2016, The Journal of experimental medicine.

GENCODE reference annotation for the human and mouse genomes

Mark Gerstein, Tomás Di Domenico, Jane Loveland, 2018, Nucleic Acids Res..

Multi-tissue integrative analysis of personal epigenomes

William Stafford Noble, James C. Wright, Jacob M. Schreiber, 2021 .

GENCODE 2021

James C. Wright, Jonathan M. Mudge, Andrew D. Yates, 2020, Nucleic Acids Res..

Multi-tissue integrative analysis of personal epigenomes [preprint] Multi-tissue integrative analysis of personal epigenomes [preprint] you.

Lei, James C. Wright, Jacob M. Schreiber, 2021 .

Resource Genomic Determinants of Protein Abundance Variation in Colorectal Cancer Cells

James C. Wright, Emanuel J. V. Gonçalves, A. Brazma, 2018 .

Identifying individuals using proteomics: are we there yet?

James C. Wright, J. Choudhary, J. Vizcaíno, 2022, Frontiers in Molecular Biosciences.

Expression Atlas update—an integrated database of gene and protein expression in humans, animals and plants

Nuno A. Fonseca, Elisabet Barrera, Robert Petryszak, 2015, Nucleic Acids Res..

Using Deep Learning to Extrapolate Protein Expression Measurements

Edgars Celms, Juan Antonio Vizcaíno, Lelde Lace, 2020, Proteomics.

The PRoteomics IDEntification (PRIDE) Converter 2 Framework: An Improved Suite of Tools to Facilitate Data Submission to the PRIDE Database and the ProteomeXchange Consortium

Lennart Martens, Harald Barsnes, Johannes Griss, 2012, Molecular & Cellular Proteomics.

Citrobacter rodentium Subverts ATP Flux and Cholesterol Homeostasis in Intestinal Epithelial Cells In Vivo

James C. Wright, M. Pevsner-Fischer, E. Elinav, 2017, Cell metabolism.

Lawrence Berkeley National Laboratory Lawrence Berkeley National Laboratory Title Exploiting proteomic data for genome annotation and gene model validation in Aspergillus

James C. Wright, S. Hubbard, R. Beynon, 2008 .

Enhanced Peptide Identification by Electron Transfer Dissociation Using an Improved Mascot Percolator*

Markus Brosch, Lukas Käll, James C. Wright, 2012, Molecular & Cellular Proteomics.