Author

Cyrus Afrasiabi

Scripps Research Institute

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Bioinformatics· 3 Genomics· 2

Signature Assays, Organisms & Methods

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Research Focus:database / resource· 3 Approach:statistical model· 3 Assay:bulk RNA-seq· 2 Research Focus:differential expression· 2 Research Focus:gene regulatory network inference· 2 Research Focus:cell type annotation· 1 Research Focus:clustering· 1 Approach:experimental assay· 1

Frequent Co-Authors

Chunlei WuiD· 5 shared Ginger TsuengiD· 3 shared Jiwen XiniD· 3 shared Andrew I. SuiD· 2 shared David Arthur HumeiD· 2 shared KIM M. SUMMERSiD· 2 shared Sebastien Lelong· 2 shared Stephen J. BushiD· 2 shared

Activity by Year

2015-2022 · peak 2/yr

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10 top collaborators · 23 mutual co-author links

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5 shared papersBioinformatics

Chunlei WuORCID

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5 papers

Recent·Most cited

BioThings SDK: a toolkit for building high-performance data APIs in biomedical research

Sebastien Lelong, Xinghua Zhou, Cyrus Afrasiabi, Zhongchao Qian, Marco Alvarado Cano, Ginger Tsueng, Jiwen Xin, Julia L. Mullen, Yao Yao, Ricardo Avila, Greg Taylor, Andrew I. Su, Chunlei Wu

The paper introduces the BioThings SDK, a toolkit for building high-performance data APIs in biomedical research, enabling integration of annotations from multiple data sources.

Bioinformatics · Jan 8, 2022Peer-reviewedBioinformatics

Combination of novel and public RNA-seq datasets to generate an mRNA expression atlas for the domestic chicken

Stephen J. Bush, Lucy J. Freem, Amanda J. MacCallum, Jenny O’Dell, Chunlei Wu, Cyrus Afrasiabi, Androniki Psifidi, Mark P. Stevens, Jacqueline Smith, KIM M. SUMMERS, David Arthur Hume

The paper integrates public and new RNA-seq data to create a chicken mRNA expression atlas, revealing tissue-specific gene clusters and developmental patterns.

BMC Genomics · Aug 7, 2018Peer-reviewedGenomics

Cross-linking BioThings APIs through JSON-LD to facilitate knowledge exploration

Jiwen Xin, Cyrus Afrasiabi, Sebastien Lelong, Julee Adesara, Ginger Tsueng, Andrew I. Su, Chunlei Wu

The paper implements JSON-LD on BioThings APIs to enhance interoperability through semantic annotations, enabling cross-linking and improved query capabilities.

BMC Bioinformatics · Feb 1, 2018Peer-reviewedBioinformatics

A High Resolution Atlas Of Gene Expression In The Domestic Sheep (Ovis aries)

Emily L. Clark, Stephen J. Bush, Mary E. B. McCulloch, Iseabail Farquhar, Rachel A Young, Lucas Lefèvre, Clare Pridans, Hiu‐Gwen Tsang, Chunlei Wu, Cyrus Afrasiabi, Mick Watson, Bruce Whitelaw, Tom C. Freeman, KIM M. SUMMERS, Alan L. Archibald, David Arthur Hume

This paper presents a high-resolution gene expression atlas for sheep, identifying transcriptional signatures and functional annotations across tissues and developmental stages.

PLoS Genetics · Sep 15, 2017Peer-reviewedGenomics

MyGene.info and MyVariant.info: Gene and Variant Annotation Query Services

Jiwen Xin, Adam Mark, Cyrus Afrasiabi, Ginger Tsueng, Moritz Juchler, Nikhil Gopal, Gregory Stupp, Timothy Putman, Benjamin Ainscough, Obi Griffith, Ali Torkamani, Patricia Whetzel, Christopher J Mungall, Sean Mooney, Andrew I Su, Chunlei Wu

MyGene.info and MyVariant.info offer APIs for querying gene and variant annotations using a scalable cloud-based infrastructure.

bioRxiv · Dec 30, 2015Bioinformatics