J. M. Gonzalez

发表

Expert curation of the human and mouse olfactory receptor gene repertoires identifies conserved coding regions split across two exons

J. Harrow, A. Frankish, J. Gonzalez, 2019, BMC Genomics.

Standardized annotation of translated open reading frames

Jonathan M. Mudge, Nicholas T. Ingolia, A. Frankish, 2022, Nature Biotechnology.

Distinct Gene Expression Proﬁling after Infection of Immature Human Monocyte-Derived Dendritic Cells by the Attenuated Poxvirus Vectors MVA and NYVAC (cid:1) †

J. Gonzalez, J. Gatell, T. Gallart, 2007 .

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

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

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.

An Integrated Encyclopedia of DNA Elements in the Human Genome

Raymond K. Auerbach, William Stafford Noble, Stephen C. J. Parker, 2012, Nature.

The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression

David G. Knowles, James B. Brown, Hagen U. Tilgner, 2012, Genome research.

GENCODE: The reference human genome annotation for The ENCODE Project

Bronwen L. Aken, Michael F. Lin, D. Haussler, 2012, Genome research.

GENCODE reference annotation for the human and mouse genomes

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

Regions Bound by 119 Human Transcription Factors Sequence Features and Chromatin Structure around the Genomic Material Supplemental

William Stafford Noble, Nathan C. Sheffield, Eurie L. Hong, 2012 .

Combining RT-PCR-seq and RNA-seq to catalog all genic elements encoded in the human genome

Bronwen L. Aken, J. Harrow, A. Frankish, 2012, Genome research.

A community-driven roadmap to advance research on translated open reading frames detected by Ribo-seq

Jonathan M. Mudge, Nicholas T. Ingolia, M. Gerstein, 2021, bioRxiv.

ENCODE Project GENCODE : The reference human genome annotation for The Material Supplemental

J. Harrow, A. Frankish, J. Gonzalez, 2012 .

Extension of human lncRNA transcripts by RACE coupled with long-read high-throughput sequencing (RACE-Seq)

Jonathan M. Mudge, Jennifer Harrow, Roderic Guigó, 2016, Nature Communications.

The Mouseion at the JAXlibrary

Carol J. Bult, John Jackson, Mark Diekhans, 2022 .

GENCODE 2021

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

Current status and new features of the Consensus Coding Sequence database

David Haussler, Jane Loveland, James G. R. Gilbert, 2013, Nucleic Acids Res..

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

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

The Vertebrate Genome Annotation browser 10 years on

Jane Loveland, James G. R. Gilbert, Jennifer L. Harrow, 2013, Nucleic Acids Res..

A joint NCBI and EMBL-EBI transcript set for clinical genomics and research

Jonathan M. Mudge, Daniel N. Murphy, Kelly M. McGarvey, 2022, Nature.

Perspectives on ENCODE

Xintao Wei, Christopher B. Burge, Jason Liu, 2020, Nature.

Re-annotation of 191 developmental and epileptic encephalopathy-associated genes unmasks de novo variants in SCN1A

Jonathan M. Mudge, J. Harrow, A. Frankish, 2019, npj Genomic Medicine.

Re-annotation of 191 developmental and epileptic encephalopathy-associated genes unmasks de novo variants in SCN1A

Jonathan M. Mudge, Dmitri D. Pervouchine, J. Harrow, 2019, npj Genomic Medicine.

Systematic re-annotation of 191 genes associated with early-onset epilepsy unmasks de novo variants linked to Dravet syndrome in novel SCN1A exons

Jonathan M. Mudge, Dmitri D. Pervouchine, J. Harrow, 2019, bioRxiv.

Scoring docking models with evolutionary information

J. Gonzalez, M. Tress, A. Valencia, 2005, Proteins.