Matt Simison

Stanford University — United States

Biochemistry, Genetics and Molecular Biology · Life Sciences

16h-index7.9kcitations20works12.02yr avg
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Research Topics

Bioinformatics and Genomic Networks(7), Genomics and Phylogenetic Studies(5), Fungal and yeast genetics research(5), Biomedical Text Mining and Ontologies(4), Antifungal resistance and susceptibility(3)

Publications19 total

Data navigation on the ENCODE portal
Nature Communications·2025· 12 citedOpen Access
The ENCODE Uniform Analysis Pipelines
2023· 38 citedOpen Access
Data navigation on the ENCODE Portal
2023· 11 citedOpen Access
Data navigation on the ENCODE portal
arXiv (Cornell University)·2023· 8 citedOpen Access
The ENCODE Uniform Analysis Pipelines
2023· 88 citedOpen Access
Harmonizing model organism data in the Alliance of Genome Resources
Genetics·2022· 94 citedOpen Access
New data and collaborations at the <i>Saccharomyces</i> Genome Database: updated reference genome, alleles, and the Alliance of Genome Resources
Genetics·2021· 94 citedOpen Access
New Data and Collaborations at the <i>Saccharomyces</i> Genome Database: Updated reference genome, alleles, and the Alliance of Genome Resources
2021· 1 citedOpen Access
Transcriptome visualization and data availability at the Saccharomyces Genome Database
Nucleic Acids Research·2019· 21 citedOpen Access
Alliance of Genome Resources Portal: unified model organism research platform
Nucleic Acids Research·2019· 190 citedOpen Access
Saccharomyces genome database informs human biology
Nucleic Acids Research·2017· 32 citedOpen Access
The<i>Candida</i>Genome Database (CGD): incorporation of Assembly 22, systematic identifiers and visualization of high throughput sequencing data
Nucleic Acids Research·2016· 461 citedOpen Access
Ontology application and use at the ENCODE DCC
Database·2015· 48 citedOpen Access
The Reference Genome Sequence of<i>Saccharomyces cerevisiae</i>: Then and Now
G3 Genes Genomes Genetics·2014· 456 citedOpen Access
The<i>Aspergillus</i>Genome Database: multispecies curation and incorporation of RNA-Seq data to improve structural gene annotations
Nucleic Acids Research·2013· 262 citedOpen Access
The<i>Candida</i>Genome Database: The new homology information page highlights protein similarity and phylogeny
Nucleic Acids Research·2013· 43 citedOpen Access
Saccharomyces Genome Database: the genomics resource of budding yeast
Nucleic Acids Research·2011· 1.9k citedOpen Access
The Aspergillus Genome Database (AspGD): recent developments in comprehensive multispecies curation, comparative genomics and community resources
Nucleic Acids Research·2011· 182 citedOpen Access
The Candida genome database incorporates multiple Candida species: multispecies search and analysis tools with curated gene and protein information for Candida albicans and Candida glabrata
Nucleic Acids Research·2011· 202 citedOpen Access

Frequent Co-authors

Stuart R. Miyasato(19), J. Michael Cherry(14), Marek S. Skrzypek(13), Gail Binkley(8), Stacia R. Engel(8), Kalpana Karra(8), Robert S Nash(8), Shuai Weng(7), Edith D. Wong(7), Benjamin C. Hitz(7), Keenan Graham(6), Paul Sud(6), J. Seth Strattan(6), Cricket A. Sloan(6), Forrest Y. Tanaka(6), Gavin Sherlock(5), Suzi Aleksander(5), Otto Jolanki(5), Meenakshi S. Kagda(5), Yunhai Luo(5)