PMID- 22766524
OWN - NLM
STAT- MEDLINE
DCOM- 20130403
LR  - 20120904
IS  - 1089-8646 (Electronic)
IS  - 0888-7543 (Linking)
VI  - 100
IP  - 4
DP  - 2012 Oct
TI  - A unified framework of overlapping genes: towards the origination and endogenic 
      regulation.
PG  - 231-9
LID - 10.1016/j.ygeno.2012.06.011 [doi]
AB  - Overlapping genes are pairs of adjacent genes whose genomic regions partially 
      overlap. They are notable by their potential intricate regulation, such as 
      cis-regulation of nested gene-promoter configurations, and post-transcriptional 
      regulation of natural antisense transcripts. The originations and consequent 
      detailed regulation remain obscure. Herein, we propose a unified framework 
      comprising biological classification rules followed by extensive analyses, 
      namely, exon-sharing analysis, a human-mouse conservation study, and 
      transcriptome analysis of hundreds of microarrays and transcriptome sequencing 
      data (mRNA-Seq). We demonstrate that the tail-to-tail architecture would result 
      from sharing functional elements in 3'-untranslated regions (3'-UTRs) of 
      pre-existing genes. Dissimilarly, we illustrate that the other gene overlaps 
      would originate from a new gene arising in a pre-existing gene locus. 
      Interestingly, these types of coupled overlapping genes may influence each other 
      synergistically or competitively during transcription, depending on the promoter 
      configurations. This framework discloses distinctive characteristics of 
      overlapping genes to be a foundation for a further comprehensive understanding of 
      them.
CI  - Copyright (c) 2012 Elsevier Inc. All rights reserved.
FAU - Ho, Meng-Ru
AU  - Ho MR
AD  - Biodiversity Research Center, Academia Sinica, Taipei 115, Taiwan.
FAU - Tsai, Kuo-Wang
AU  - Tsai KW
FAU - Lin, Wen-chang
AU  - Lin WC
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
DEP - 20120702
PL  - United States
TA  - Genomics
JT  - Genomics
JID - 8800135
RN  - 0 (3' Untranslated Regions)
RN  - 0 (Chromatin)
RN  - 0 (RNA, Antisense)
RN  - 0 (RNA, Messenger)
SB  - IM
MH  - 3' Untranslated Regions/genetics
MH  - Animals
MH  - Chromatin/genetics
MH  - Exons
MH  - Gene Expression Profiling
MH  - *Gene Expression Regulation
MH  - Genes, Overlapping/*genetics
MH  - Humans
MH  - Mice
MH  - Promoter Regions, Genetic/*genetics
MH  - RNA, Antisense/genetics
MH  - RNA, Messenger/genetics
EDAT- 2012/07/07 06:00
MHDA- 2013/04/04 06:00
CRDT- 2012/07/07 06:00
PHST- 2012/01/27 00:00 [received]
PHST- 2012/06/21 00:00 [revised]
PHST- 2012/06/25 00:00 [accepted]
PHST- 2012/07/07 06:00 [entrez]
PHST- 2012/07/07 06:00 [pubmed]
PHST- 2013/04/04 06:00 [medline]
AID - S0888-7543(12)00129-2 [pii]
AID - 10.1016/j.ygeno.2012.06.011 [doi]
PST - ppublish
SO  - Genomics. 2012 Oct;100(4):231-9. doi: 10.1016/j.ygeno.2012.06.011. Epub 2012 Jul 
      2.