Apr

26

miRBase Version 15.0 Arrives

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April 26th, 2010 – miRBase microRNA Sequence Database Updated to Release 15.0

The latest version (15.0) of the miRBase sequence database for known miRNAs was released today.

miRBase 15 is freely available at http://www.mirbase.org/. You can find a quick summary for the new release at ftp://mirbase.org/pub/mirbase/CURRENT/README.

Highlights of the new release:

  • Release 15 represents a major update to the database increasing the number of mature miRNA sequences by a full 48% over release 14.0.
  • This latest release features a total of 15,632 mature miRNA sequences.
  • The number of verified microRNAs has increased from 10,883 to 14,197 hairpin precursor miRNAs.
  • 18 new species have been added bringing the total to 133 species.
  • Many sequences have been updated or revised.
  • New sequences have been added to important model species – Human (219), Mouse (11), Rat (1), Drosophila (218), Nematode sp. (311), Arabidopsis (9).
  • New sequences have been added to important agricultural species – Cow (50), Pig (98), Silkworm (396), Peanut (23), Cotton sp.(24), Orange sp.(25), Rice (33), Sorghum (8), Corn (61).
  • A total of 526 new plant sequences and 53 new virus sequences
  • Other important new species include – Zebra Finch, Japanese Killifish, Yellow Fever & West Nile Mosquitos, Castor Oil Plant

This updated probe content is currently available on all of our standard or custom microRNA microarrays.

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Apr

14

High-Throughput Approaches for miRNA Expression Analysis

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Book Series Methods in Molecular Biology
ISSN 1064-3745 (Print) 1940-6029 (Online)
Volume Volume 592
Book Plant MicroRNAs
Publisher Humana Press
DOI 10.1007/978-1-60327-005-2
Copyright 2010
ISBN 978-1-60327-004-5 (Print) 978-1-60327-005-2 (Online)
DOI 10.1007/978-1-60327-005-2_8
Pages 107-125
Subject Collection Biomedical and Life Sciences
SpringerLink Date Saturday, October 03, 2009

By: Cheng Lu1, Frédéric Souret2

miRNAs have emerged as key regulators of gene expression in both plants and animals. These small (generally 21–22 nt) RNA molecules, originated from primary “hairpin” transcripts, can induce translational suppression or direct mRNA cleavage. Similar to regular mRNAs, the expression of miRNAs is highly regulated. Their expression pattern could provide critical clues to understanding miRNA functions. However, many previously identified miRNA families have multiple paralogous loci. Within each family, different members are often closely related and sometimes give rise to identical miRNAs. This poses critical challenges in the analysis of individual miRNA genes. This chapter describes several methods that are commonly used for miRNA expression analysis, including high-throughput sequencing, microarrays, and briefly discusses qRT-PCR, northern blotting, and other approaches used for data validation.

Apr

8

microRNA in Development & Disease

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SOUTHWESTERN AND ROCKY MOUNTAIN DIVISION
of the
THE AMERICAN ASSOCIATION FOR THE ADVANCEMENT OF SCIENCE

85th ANNUAL MEETING 

“EXPANDING FRONTIERS through the ADVANCEMENT OF SCIENCE”

RICE UNIVERSITY
HOUSTON, TEXAS
APRIL 8-10, 2010

microRNAs in Development & Disease Session

Preethie H. Gunaratne, Ph.D. (Chair)
Sponsors: LC Sciences, Norgen Biotek, Illumnia, Integrated DNA Technologies, Thermo Scientific
Date: 04-08-10
Time: 1.00-7.00 PM

Room: 284 BRC (BioScience Research Collaborative)

AGENDA

1.00-1.10 pm: Introduction and welcome.

1.10-1.30 pm:  Preethi H. Gunaratne, Ph.D.

Assistant Professor, Dept. Biology & Biochemistry, University of Houston

Title: A Functional genomics platform for discovering novel tumor suppressor microRNAs for individualized cancer therapy

1.35-1.55 pm:  Martin M. Matzuk, M.D., Ph.D.

Professor, Department of Pathology, Baylor College of Medicine

Title: Small RNAs in the female reproductive tract of mammals

2.00-2.20pm:  Matthew L. Anderson, M.D., Ph.D.

Assistant Professor, Department of Obstetrics & Gynecology, Baylor College of Medicine

Title:MicroRNAs as Therapeutic Targets in Female Reproductive Tract Cancers

2.25-2.45 pm:  Jason Shohet, M.D., Ph.D.

Assistant Professor, Pediatric/Hem-Onc Cell & Gene Therapy, Baylor College of Medicine

Title:A Genome-wide screen for MYCN regulated microRNAs with ChIP-seq reveal oncogenic and tumor supressor microRNAs in neuroblastoma

BREAK – 2.45-3.00 pm

3.00-3.20 pm: Soo-Kyung Lee, Ph.D.

 Assistant Professor, Dept. Molecular and Cellular Biology, Baylor College of Medicine

Title: The role of an intronic microRNA family in the gene regulatory network during spinal cord development

3.25-3.45 pm:  Joel Neilson, Ph.D.

Assistant Professor, Department of Molecular Physiology, Baylor College of Medicine

Title: Programs of 3′ UTR variation in normal and transformed mammalian cells.

3.50-4.10 pm. Dr. Tom Cooper, M.D.

Professor, Department of Pathology, Baylor College of Medicine

Title:MicroRNA-mediated regulation of RNA binding proteins controls a network of alternative splicing transitions during postnatal mouse heart development.

BREAK: 4.10-4.25 pm

4.25-4.45 pm:  Robert J. Schwartz, Ph.D.

Professor, Department of Biology & Biochemistry, University of Houston

Title: Serum response factor micromanages heart development

4.50-5.10 pm:  Austin J. Cooney, Ph.D.

Associate Professor, Department of Cell & Molecular Biology, Baylor College of Medicine

Title:miRNA regulation of pluripotency factors.

5.15-5.35 pm: Gerald Wilmink, Ph.D.

William Roach, Air Force Research Laboratory, Brooks City-Base, TX

Title:  Identification and characterization of microRNAs associated with hyperthermia-induced cellular response

5.35 – 5.55 pm: David B. Corry, M.D.

Professor of Medicine and Immunology, Baylor College of Medicine

Title:The pro-inflammatory role of miRNAs: an emerging paradigm.

6.00-7.00 pm: Reception