Philadelphia University + Thomas Jefferson University

Rigoutsos, Isidore

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Isidore Rigoutsos, PhD

Contact Dr. Rigoutsos

1020 Locust Street
Jefferson Alumni Hall
Philadelphia, PA 19107

(215) 503-6152
(215) 955-5058 fax

Research and 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. Accurate profiling and quantification of tRNA fragments from RNA-Seq Data: A Vade Mecum for MINTmap
  2. MINTbase v2.0: A comprehensive database for tRNA-derived fragments that includes nuclear and mitochondrial fragments from all the Cancer Genome Atlas projects
  3. Increasing cell density globally enhances the biogenesis of Piwi-interacting RNAs in Bombyx mori germ cells
  4. The biogenesis pathway of tRNA-derived piRNAs in Bombyx germ cells
  5. Integrated Genomic Characterization of Pancreatic Ductal Adenocarcinoma
  6. An miRNA expression signature for the human colonic stem cell niche distinguishes malignant from normal epithelia
  7. Threshold-seq: A tool for determining the threshold in short RNA-seq datasets
  8. N-BLR, a primate-specific non-coding transcript leads to colorectal cancer invasion and migration
  9. YAMAT-seq: An efficient method for high-throughput sequencing of mature transfer RNAs
  10. MINTmap: Fast and exhaustive profiling of nuclear and mitochondrial tRNA fragments from short RNA-seq data
  11. Post-transcriptional regulation of BRCA2 through interactions with miR-19a and miR-19b
  12. MINTbase: A framework for the interactive exploration of mitochondrial and nuclear tRNA fragments
  13. GPRC5A is a potential oncogene in pancreatic ductal adenocarcinoma cells that is upregulated by gemcitabine with help from HuR
  14. Integrative Multi-omic Analysis of Human Platelet eQTLs Reveals Alternative Start Site in Mitofusin 2
  15. The mRNA-binding protein HuR promotes hypoxia-induced chemoresistance through posttranscriptional regulation of the proto-oncogene PIM1 in pancreatic cancer cells
  16. Consequential considerations when mapping tRNA fragments
  17. Aging-associated changes in microRNA expression profile of internal anal sphincter smooth muscle: Role of microRNA-133a
  18. Knowledge about the presence or absence of miRNA isoforms (isomiRs) can successfully discriminate amongst 32 TCGA cancer types
  19. Multi-focal control of mitochondrial gene expression by oncogenic MYC provides potential therapeutic targets in cancer
  20. Beyond the one-locus-one-miRNA paradigm: microRNA isoforms enable deeper insights into breast cancer heterogeneity