Websites
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Positions
- Associate Professor
- Mol & Cell Biology-Mol.Regulation
- Baylor College of Medicine
- Houston, TX, US
- Associate Professor
- Dan L Duncan Comprehensive Cancer Center
- Baylor College of Medicine
- Houston, Texas, United States
- Associate Professor
- Center for Precision Environmental Health
- BAYLOR COLLEGE OF MEDICINE
- Houston, Texas, United States
Education
- PhD from Rice University
- Computer Science
- MS from Rice University
- Computer Science
Professional Statement
Our research focuses on achieving biological insight via integrative analysis, interpretation, and visualization of large scale multi-omics datasets, and enabling of scientific advancements via collaborative tools and computing platforms. Our lab has extensive experience with analysis of RNA-Seq coding and non-coding transcriptomics, Small RNA-Seq, Whole-Genome Bisulfite-Seq, MS-based Metabolomics and Lipidomics, MS Proteomics, and RPPA Proteomics. We have developed methods for integration of genetic and epigenetic variation, reference pipelines for epigenetic assays, and bioinformatic tools for high-throughput reads mapping and structural variants detection. Our current focus is on tool development for metabolomics and transcriptomics integration, and mining of large transcriptomic and epigenomic data collections.
Selected Publications
- Coarfa C, Yu F, Miller CA, Chen Z, Harris RA, Milosavljevic A. "Pash 3.0: A versatile software package for read mapping and integrative analysis of genomic and epigenomic variation using massively parallel DNA sequencing.." BMC Bioinformatics. 2010;11:572. Pubmed PMID: 21092284
- Van Baak TE, Coarfa C, et al, Waterland RA.. "Epigenetic supersimilarity of monozygotic twin pairs." Genome Biology. 2018 January 9;19 Pubmed PMID: 29310692
- Mindikoglu AL, Opekun AR, Putluri N, Coarfa C. "Unique metabolomic signature associated with hepatorenal dysfunction and mortality in cirrhosis." Transl Res. 2018 May Pubmed PMID: 29291380
- Abbas HA, Bui NHB, Rajapakshe K, Wong J, Gunaratne P, Tsai KY, Coarfa C, Flores ER. "Distinct TP63 Isoform-Driven Transcriptional Signatures Predict Tumor Progression and Clinical Outcomes." Cancer Research. 2018 January Pubmed PMID: 29180475
- Coarfa C, Couroucli X, Moorthy B, Lingappan K. "Sexual dimorphism of the pulmonary transcriptome in neonatal hyperoxic lung injury: identification of angiogenesis as a key pathway." Am J Physiol Lung Cell Mol Physiol. 2017 December Pubmed PMID: 28818871
- von Rundstedt FC, Rajapakshe K, Lerner SP, Coarfa C, Putluri N.. "Integrative Pathway Analysis of Metabolic Signature in Bladder Cancer: A Linkage to The Cancer Genome Atlas Project and Prediction of Survival." J Urology. 2016 June Pubmed PMID: 26802582