Isidore Rigoutsos, PhD

Professor, Department of Pathology, Anatomy & Cell Biology
Director, Center for Computational Medicine

Rigoutsos, Isidore


1020 Locust Street
Jefferson Alumni Hall
Philadelphia, PA 19107

Email Isidore Rigoutsos

215-955-5058 fax

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Isidore Rigoutsos, PhD

Professor, Department of Pathology, Anatomy & Cell Biology
Director, Center for Computational Medicine

Research & Clinical Interests

Pattern discovery; motif discovery; regulatory motifs; microRNAs; miRNAs; piRNAs; microRNA and piRNA targeting; non-coding RNAs; RNAi; RNA interference; retrotransposons; cell process regulation; genomics; computational genetics; computational medicine; diagnostics; therapeutics; high-throughput sequencing analysis; microbial genomics; metagenomics; high performance computing.


Most Recent Peer-Reviewed Publications


  1. Short RNA regulators: the past, the present, the future, and implications for precision medicine and health disparities
  2. TRNA fragments show intertwining with mRNAs of specific repeat content and have links to disparities
  3. Small RNA Sequencing across Diverse Biofluids Identifies Optimal Methods for exRNA Isolation
  4. Profiles of miRNA Isoforms and tRNA Fragments in Prostate Cancer
  5. Race disparities in the contribution of miRNA isoforms and tRNA-derived fragments to Triple-negative breast cancer
  6. Accurate profiling and quantification of tRNA fragments from RNA-Seq Data: A Vade Mecum for MINTmap
  7. MINTbase v2.0: A comprehensive database for tRNA-derived fragments that includes nuclear and mitochondrial fragments from all the Cancer Genome Atlas projects
  8. Increasing cell density globally enhances the biogenesis of Piwi-interacting RNAs in Bombyx mori germ cells
  9. The biogenesis pathway of tRNA-derived piRNAs in Bombyx germ cells
  10. Integrated Genomic Characterization of Pancreatic Ductal Adenocarcinoma
  11. An miRNA expression signature for the human colonic stem cell niche distinguishes malignant from normal epithelia
  12. Threshold-seq: A tool for determining the threshold in short RNA-seq datasets
  13. N-BLR, a primate-specific non-coding transcript leads to colorectal cancer invasion and migration
  14. YAMAT-seq: An efficient method for high-throughput sequencing of mature transfer RNAs
  15. Assessment of isomiR discrimination using commercial qPCR methods
  16. MINTmap: Fast and exhaustive profiling of nuclear and mitochondrial tRNA fragments from short RNA-seq data
  17. Knowledge about the presence or absence of miRNA isoforms (isomiRs) can successfully discriminate amongst 32 TCGA cancer types
  18. Post-transcriptional regulation of BRCA2 through interactions with miR-19a and miR-19b
  19. MINTbase: A framework for the interactive exploration of mitochondrial and nuclear tRNA fragments
  20. Integrative Multi-omic Analysis of Human Platelet eQTLs Reveals Alternative Start Site in Mitofusin 2