Skip to content
Computational Medicine Center at Thomas Jefferson University
Computational Medicine Center
  Menu
Skip to content
  • About CMC
    • Overview
    • Licensing Inquiries
    • Join our Team
    • Support our Research
    • Contact Us
  • People
    • Current Members
    • Technology Licensing
    • Alumni
    • Team Photo Gallery
  • Research
    • Research Areas
      • Health Disparities
      • Disease Research
      • Novel Molecules
      • Big Data
    • Research Highlights
    • Biological Concepts
      • The Basics
      • DNA and RNA
      • Laboratory Technologies
      • Computational Biology
      • Precision Medicine
    • IBM Case Study
    • Publications
    • Patents
  • Academics
    • Apply to Jefferson
    • MS in Computational Biology & Medicine
    • Past Event Videos
      • RNA Matters Lecture Series
      • “Precision Medicine” One Day Event
  • Public Resources
    • Tools and Downloads
    • License Plates
    • Threshold-seq
    • MINTbase
    • MINTmap
    • tRNA-Lookalikes
    • Novel Human miRNAs
    • RNA22
    • isoMiRmap
    • Pyknons
    • Off-Spotter
    • CLIPSim-MC
  • Newsroom
    • Latest News
    • Press
    • Blog
    • Ask a Scientist
  • Make a Gift
Home Archive by category "Research Papers" (Page 2)

Research Papers

Summaries of our highlighted papers.

MINTbase v2.0: a comprehensive database for tRNA-derived fragments that includes nuclear and mitochondrial fragments from all The Cancer Genome Atlas projects

Interactive graphs of the TCGA tRNA fragments in MINTbase We expanded MINTbase to include all of The Cancer Genome Atlas datasets (TCGA). They are accompanied by new graphs and…

Continue reading

Research Papers

Integrated Genomic Characterization of Pancreatic Ductal Adenocarcinoma

Role of miR-192-5p and miR-194-5p in cancer The Computational Medicine Center participated in the Pancreatic Ductal Adenocarcinoma project of TCGA with a systems and network biology integrative…

Continue reading

Research Papers

Cell-cell contact activates piRNA biogenesis

Cell density role in piRNA biogenesis Our study revealed that cell-cell contact globally activates the biogenesis of piRNAs, which suggests the alteration of cell density as…

Continue reading

Research Papers

The biogenesis pathway of tRNA-derived piRNAs

Graphic Showing the Biogenesis Pathway of tRNA-Derived piRNAs Our study revealed the biogenesis pathway of tRNA-derived piRNAs and provided the example of how specific expression profiles of tRNA-derived…

Continue reading

Research Papers

N-BLR: a pyknon-containing, primate-specific long non-coding RNA

The pyknon-containing N-BLR is a novel modulator of the epithelial-to-mesenchymal-transition process and of the apoptotic pathway in colorectal cancer We…

Continue reading

Research Papers

Assessment of isomiR Discrimination Using Commercial qPCR Methods

We investigated whether Taqman and LNA miRNA qPCR methods can sufficiently discriminate closely related miRNA isoforms or isomiRs.1 Commercial quantitative…

Continue reading

Research Papers

Knowledge about the presence or absence of miRNA isoforms (isomiRs) can successfully discriminate amongst 32 TCGA cancer types

Graphic Showing Machine Learning Classification Results for Binarized isomiR Profiles on TCGA Datasets We utilized a machine learning approach to predict the cancer type based only on a binary profile of which miRNAs…

Continue reading

Research Papers

YAMAT-seq: an efficient method for high-throughput sequencing of mature tRNAs

Illustration of the YAMAT-seq method for high-throughput sequencing of mature tRNAs We developed YAMAT-seq, an efficient method for tRNA sequencing, which provides high-throughput technique for identifying tRNA profiles and their regulations…

Continue reading

Research Papers

5′-terminal nucleotide variations in human cytoplasmic tRNAHisGUG and its 5′-halves

Graph of tRNA HisGUG SHOT-RNA We clarified 5′-end variations of human cytoplasmic tRNAHisGUG and its 5′-halves, providing insights into tRNAHisGUG maturation and the regulation of…

Continue reading

Research Papers

Post-transcriptional regulation of BRCA2 through interactions with miR-19a and miR-19b

Illustration of the Predicted miRNAs response elements (MREs) within BRCA2 for the miR-17/92 cluster Our results suggest that BRCA2 is post-transcriptionally regulated by miR-19a and miR-19b, two members of the miR-17/92 cluster, and that…

Continue reading

Research Papers
123
  • Overview

    Publications

    Patents

  • Jefferson - Philadelphia University + Thomas Jefferson University - Home of Sidney Kimmel Medical College\
    Copyright © 2025 TJU.
    \

Computational Medicine Center

  • Contact Us
  • Follow @CompMedicineTJU