Author

Fan Gao

The University of Texas MD Anderson Cancer Center

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

Same name, identified by ORCID

Biology Disciplines

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Bioinformatics· 2 Genetics· 2 Genomics· 1

Signature Assays, Organisms & Methods

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Organism:human· 4 Approach:statistical model· 4 Research Focus:benchmarking· 2 Assay:bulk RNA-seq· 2 Research Focus:deconvolution· 2 Research Focus:differential expression· 2 Research Focus:software / tool· 2 Research Focus:cell type annotation· 1

Frequent Co-Authors

Wenyi WangiD· 4 shared Elissa B. Dodd-Eaton· 2 shared Jasmina BojadzievaiD· 2 shared Jingxiao CheniD· 2 shared Louise C. StrongiD· 2 shared Shaolong CaoiD· 2 shared Zeya WangiD· 2 shared Bo LiiD· 1 shared

Activity by Year

2014-2020 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 26 mutual co-author links

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4 shared papersGenetics

Wenyi WangORCID

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Author profile →

5 papers

Recent·Most cited

A pedigree-based prediction model identifies carriers of deleterious de novo mutations in families with Li-Fraumeni syndrome

Fan Gao, Xuedong Pan, Elissa B. Dodd-Eaton, Carlos Vera Recio, Matthew D. Montierth, Jasmina Bojadzieva, Phuong L. Mai, Kristin Zelley, Valen E. Johnson, Danielle Braun, Kim E. Nichols, Judy Ellen Garber, Sharon A. Savage, Louise C. Strong, Wenyi Wang

The paper introduces Famdenovo, a model to predict de novo mutations in families with Li-Fraumeni syndrome, identifying 40 new carriers and showing high prediction accuracy.

Genome Research · Aug 1, 2020Peer-reviewedGenetics

Risk of multiple primary cancer diagnosis over age in families of Li-Fraumeni syndrome: a single institution perspective

Seung Jun Shin, Elissa B. Dodd-Eaton, Fan Gao, Jasmina Bojadzieva, Jingxiao Chen, Xianhua Kong, Christopher Ian Amos, Jing Ning, Louise C. Strong, Wenyi Wang

The paper estimates penetrance for first and second primary cancer diagnoses in Li-Fraumeni syndrome families and validates a risk prediction model with an AUC of 0.77.

Cancer Research · Nov 12, 2019Peer-reviewedGenetics

An R Implementation of Tumor-Stroma-Immune Transcriptome Deconvolution Pipeline using DeMixT

Shaolong Cao, Zeya Wang, Fan Gao, Jingxiao Chen, Feng Zhang, Daniel E. Frigo, Eleni Efstathiou, Scott Kopetz, Wenyi Wang

The paper presents an R pipeline using DeMixT for tumor-stroma-immune transcriptome deconvolution, showing immune proportion variations in COAD and PRAD datasets.

bioRxiv · Mar 5, 2019 · PreprintBioinformatics

Transcriptome Deconvolution of Heterogeneous Tumor Samples with Immune Infiltration

Zeya Wang, Shaolong Cao, Jeffrey S. Morris, Jaeil Ahn, Rongjie Liu, Svitlana Tyekucheva, Fan Gao, Bo Li, Wei Lü, Ximing Tang, Ignacio Ivan Wistuba, Michaela Bowden, Lorelei Ann Mucci, Massimo F. Loda, Giovanni Parmigiani, , Wenyi Wang

DeMixT improves transcriptomic deconvolution by estimating component proportions and expression profiles in heterogeneous samples, showing high accuracy in validation and TCGA data.

iScience · Nov 1, 2018Peer-reviewedBioinformatics

Ligation-anchored PCR unveils immune repertoire of TCR-beta from whole blood

Fan Gao, Kai Wang

The paper develops a ligation-anchored PCR method to unbiasedly amplify TCR-beta repertoires from whole blood and identifies differences in TRBV29-1 usage and CDR3 sequence logos between benign and malignant meningiomas.

bioRxiv · Jul 11, 2014Genomics