TY  - JOUR
A1  - Gellert, Pascal
A1  - Ponomareva, Yuliya
A1  - Braun, Thomas
A1  - Uchida, Shizuka
T1  - Noncoder : a web interface for exon array-based detection of long non-coding RNAs
T2  - Nucleic acids research
N2  - Due to recent technical developments, a high number of long non-coding RNAs (lncRNAs) have been discovered in mammals. Although it has been shown that lncRNAs are regulated differently among tissues and disease statuses, functions of these transcripts are still unknown in most cases. GeneChip Exon 1.0 ST Arrays (exon arrays) from Affymetrix, Inc. have been used widely to profile genome-wide expression changes and alternative splicing of protein-coding genes. Here, we demonstrate that re-annotation of exon array probes can be used to profile expressions of tens of thousands of lncRNAs. With this annotation, a detailed inspection of lncRNAs and their isoforms is possible. To allow for a general usage to the research community, we developed a user-friendly web interface called 'noncoder'. By uploading CEL files from exon arrays and with a few mouse clicks and parameter settings, exon array data will be normalized and analysed to identify differentially expressed lncRNAs. Noncoder provides the detailed annotation information of lncRNAs and is equipped with unique features to allow for an efficient search for interesting lncRNAs to be studied further. The web interface is available at http://noncoder.mpi-bn.mpg.de.
Y1  - 2012
UR  - http://publikationen.ub.uni-frankfurt.de/frontdoor/index/index/docId/26593
UR  - https://nbn-resolving.org/urn:nbn:de:hebis:30:3-265938
UR  - http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3592461/
SN  - 1362-4962
SN  - 0305-1048
N1  - (c) The Author(s) 2012. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/3.0/), which permits unrestricted, distribution, and reproduction in any medium, provided the original work is properly cited.
VL  - 41
IS  - (1): e20
SP  - 1
EP  - 10
PB  - Oxford Univ. Press
CY  - Oxford
ER  -