PMID- 25652569
OWN - NLM
STAT- MEDLINE
DCOM- 20151130
LR  - 20181113
IS  - 1471-2164 (Electronic)
IS  - 1471-2164 (Linking)
VI  - 16
IP  - 1
DP  - 2015 Feb 5
TI  - Expression and regulation of long noncoding RNAs in TLR4 signaling in mouse 
      macrophages.
PG  - 45
LID - 10.1186/s12864-015-1270-5 [doi]
LID - 45
AB  - BACKGROUND: Though long non-coding RNAs (lncRNAs) are emerging as critical 
      regulators of immune responses, whether they are involved in LPS-activated TLR4 
      signaling pathway and how is their expression regulated in mouse macrophages are 
      still unexplored. RESULTS: By repurposing expression microarray probes, we 
      identified 994 lncRNAs in bone marrow-derived macrophages (BMDMs) and classified 
      them to enhancer-like lncRNAs (elncRNAs) and promoter-associated lncRNAs 
      (plncRNAs) according to chromatin signatures defined by relative levels of 
      H3K4me1 and H3K4me3. Fifteen elncRNAs and 12 plncRNAs are differentially 
      expressed upon LPS stimulation. The expression change of lncRNAs and their 
      neighboring protein-coding genes are significantly correlated. Also, the 
      regulation of both elncRNAs and plncRNAs expression is associated with H3K4me3 
      and H3K27Ac. Crucially, many identified LPS-regulated lncRNAs, such as 
      lncRNA-Nfkb2 and lncRNA-Rel, locate near to immune response protein-coding genes. 
      The majority of LPS-regulated lncRNAs had at least one binding site among the 
      transcription factors p65, IRF3, JunB and cJun. CONCLUSIONS: We established an 
      integrative microarray analysis pipeline for profiling lncRNAs. Also, our results 
      suggest that lncRNAs can be important regulators of LPS-induced innate immune 
      response in BMDMs.
FAU - Mao, Ai-Ping
AU  - Mao AP
AD  - Department of Pathology, Committee on Immunology, University of Chicago, Chicago, 
      Illinois, the United States. amao@bsd.uchicago.edu.
FAU - Shen, Jun
AU  - Shen J
AD  - Department of Gastroenterology, Renji Hospital, Shanghai Jiao-Tong University, 
      School of Medicine, Shanghai Institute of Digestive Disease, Shanghai, China. 
      shenjun@vip.163.com.
FAU - Zuo, Zhixiang
AU  - Zuo Z
AD  - Department of Medicine, University of Chicago, 900 East 57th street, Chicago, IL, 
      60637, USA. zzuo@bsd.uchicago.edu.
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
DEP - 20150205
PL  - England
TA  - BMC Genomics
JT  - BMC genomics
JID - 100965258
RN  - 0 (Chromatin)
RN  - 0 (Lipopolysaccharides)
RN  - 0 (RNA, Long Noncoding)
RN  - 0 (Tlr4 protein, mouse)
RN  - 0 (Toll-Like Receptor 4)
SB  - IM
MH  - Animals
MH  - Chromatin/genetics
MH  - Gene Expression Regulation/drug effects
MH  - Lipopolysaccharides/administration & dosage
MH  - Macrophages/drug effects/*metabolism
MH  - Mice
MH  - Oligonucleotide Array Sequence Analysis
MH  - Promoter Regions, Genetic
MH  - RNA, Long Noncoding/biosynthesis/*genetics
MH  - Toll-Like Receptor 4/*genetics/metabolism
MH  - Transcriptome/drug effects/*genetics
PMC - PMC4320810
EDAT- 2015/02/06 06:00
MHDA- 2015/12/15 06:00
PMCR- 2015/02/05
CRDT- 2015/02/06 06:00
PHST- 2014/07/26 00:00 [received]
PHST- 2015/01/22 00:00 [accepted]
PHST- 2015/02/06 06:00 [entrez]
PHST- 2015/02/06 06:00 [pubmed]
PHST- 2015/12/15 06:00 [medline]
PHST- 2015/02/05 00:00 [pmc-release]
AID - s12864-015-1270-5 [pii]
AID - 1270 [pii]
AID - 10.1186/s12864-015-1270-5 [doi]
PST - epublish
SO  - BMC Genomics. 2015 Feb 5;16(1):45. doi: 10.1186/s12864-015-1270-5.