Difference between revisions of "Main Page"

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{|style="width:100%; margin-top:10px; background-color:#f6f6f6; border:1px solid #d2d2d2; margin-bottom: 10px;"
 
{|style="width:100%; margin-top:10px; background-color:#f6f6f6; border:1px solid #d2d2d2; margin-bottom: 10px;"
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|style="width:50%; text-align:center; white-space:nowrap; color:#000"|
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<div style="font-size:180%; border:none; margin:0; padding:.5em; color:#000;">Welcome to LncRNAWiki</div>
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<div style="font-size:180%; border:none; margin:0; padding:.5em; color:#000;">Welcome to LncRNAWiki 1.0</div>
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<div style="padding:0em; font-size:100%">[[:Category:Transcripts|105,824]] human long non-coding RNAs inside</div>
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<div style="padding:0em; font-size:100%">[[:Category:Transcripts|106,063]] human long non-coding RNAs inside</div>
  
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*[[:Category:Transcripts|LncRNA Transcripts]]
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*[[:Category:Transcripts|Transcripts]]
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*[[:Category:Genes|Genes]]
 
*[[LncRNAWiki:Classification|Classification]]
 
*[[LncRNAWiki:Classification|Classification]]
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*[[:Category:Genes|Genes]]
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*[[LncRNAWiki:Featured|Featured LncRNAs]]
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*[[Special:BLAST|BLAST]]
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*[https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&biological_context=Disease Disease]
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*[https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&functional_mechanism= Function]
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*[[LncRNAWiki:Download|Downloads]]
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*[[LncRNAWiki:FAQ|FAQ]]
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*[[LncRNAWiki:Small_proteins|Small Proteins]]
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*[http://bigd.big.ac.cn/lgc Prediction]
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*[[File:New5.png]][[LncRNAWiki:Featured|Featured LncRNAs]]
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*[http://bigd.big.ac.cn/lncbook/blast BLAST]
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*[[File:New5.png]][[LncRNAWiki:Small_proteins|Small Proteins]]
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*[[File:New5.png]][[LncRNAWiki:Disease|Disease]]
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<div style="padding:0.5em 0.5em;">[[File:News2.png|center|150px|link=https://ngdc.cncb.ac.cn/lncrnawiki/]]</div>
 
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<!---------------welcome Box----------------->
 
<!---------------welcome Box----------------->
 
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<div style="padding:1em 0.5em;">
 
<div style="padding:1em 0.5em;">
 
{{LncRNAWiki:Summary}}
 
{{LncRNAWiki:Summary}}
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<div style="padding:0.2em 0.5em;text-align:center;font-weight:bold;color:#2d2d2d;">''Imagine a world in which every single person on the planet has free access to the sum of all human knowledge. — Jimmy Wales, Founder of Wikipedia''</div>
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<div style="padding:0.2em 0.5em;text-align:center;color:#2d2d2d;"> ''LncRNAWiki, an important component of '' [http://bigd.big.ac.cn/lncbook '''LncBook'''], ''provides community annotations of human lncRNAs''</div>
 
</div>
 
</div>
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----
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|}
  
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|}
 
 
<!--------------main part one---------------->
 
<!--------------main part one---------------->
 
{|border="0" cellspacing="0" cellpadding="0" style="margin:1em 0; background:transparent; width:100%;"
 
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|-
 
|-
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<!-----------Disease------------>
 
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|valign="top" style="border:1px solid #66B3FF; background-color:transparent; "|
 
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<div style="background:#ACD6FF; border-bottom:1px solid #66B3FF; padding:0.2em 0.5em; font-size:125%; font-weight:bold;">Disease</div>
 
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<div style="padding:0.5em 0.5em;">[[File:Statistics4.png|left|900px]]
 
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LncRNAWiki keeps frequent updates by community annotation of human lncRNAs and integration of newly identified lncRNAs with experimental evidence.
 
  
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In contrast to the previous version (released in 2014) that had 86 curated lncRNAs, the updated version has, a total of 719 lncRNAs that are community-curated (the detailed list is available at [[LncRNAWiki:Featured|Featured LncRNAs]]).  
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<!-----------Featured lncRNAs------------>
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|valign="top" style="border:1px solid #66B3FF; background-color:transparent;width:50%;"|
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<div style="background:#ACD6FF; border-bottom:1px solid #66B3FF; padding:0.2em 0.5em; font-size:125%; font-weight:bold;">[http://lncrna.big.ac.cn/index.php/LncRNAWiki:Featured Featured lncRNAs]</div>
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<div style="padding:0.5em 0.5em;">[[File:Homepage-2020.png|center|500px|link=LncRNAWiki:Featured]]</div>
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|style="padding:0px 4px;"|
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<!-----------Top 10 lncRNA-associated diseases------------>
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|valign="top" style="border:1px solid #66B3FF; background-color:transparent;"|
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<div style="background:#ACD6FF; border-bottom:1px solid #66B3FF; padding:0.2em 0.5em; font-size:125%; font-weight:bold;">Top 10  [https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&biological_context=Disease lncRNA-associated diseases]</div>
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<div style="padding:0.5em 0.5em;">
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''Diseases and their associated lncRNAs' counts are listed below.''
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* [https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&context_detail=hepatocellular%20cancer Hepatocellular cancer]: 361
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* [https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&context_detail=colorectal%20cancer Colorectal cancer]: 305
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* [https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&context_detail=lung%20cancer Lung cancer]: 296
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* [https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&context_detail=breast%20cancer Breast cancer]: 282
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* [https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&context_detail=oral%20squamous%20cell%20cancer Oral squamous cell cancer]: 234
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* [https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&context_detail=Gastric%20cancer Gastric cancer]: 233
  
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Among these 719 lncRNAs, 304 have been experimentally proved to be associated with cancer and other diseases ([[LncRNAWiki:Disease|Disease]])
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* [https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&context_detail=prostate%20cancer Prostate cancer]: 213
  
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* [https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&context_detail=b%20acute%20lymphoblastic%20leukemia%20with%20t B acute lymphoblastic leukemia with t(1;19)(q23;p13.3)]: 173
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* [https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&context_detail=papillary%20thyroid%20cancer Papillary thyroid cancer]: 157
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* [https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&context_detail=obesity Obesity]: 151
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</div>
 
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|-
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<!-----------Data source------------>
 
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<div style="background:#ACD6FF; border-bottom:1px solid #66B3FF; padding:0.2em 0.5em; font-size:125%; font-weight:bold;">Data source</div>
 
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<div style="padding:0.5em 0.5em;">[[File:web1a.png|center|350px|caption]]
 
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The majority of the lncRNA information was initially seeded with a subset of information from [http://www.gencodegenes.org/ GENCODE], [http://www.bioinfo.org/noncode/ NONCODE], [http://www.lncipedia.org/ LNCipedia], and [http://www.lncrnadb.org/ lncRNAdb](purple circle indicates lncRNAdb).
 
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<!-----------------Classification---------------------->
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<!-----------------Extensively curated---------------------->
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|valign="top" style="border:1px solid #66B3FF; background-color:transparent; "|
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|valign="top" style="border:1px solid #66B3FF; background-color:transparent;width:50%;"|
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<div style="background:#ACD6FF; border-bottom:1px solid #66B3FF; padding:0.2em 0.5em; font-size:125%; font-weight:bold;">Classification</div>
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{|style="width:100%;"
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<div style="padding:0.5em 0.5em;">[[File:web2a.png|center|400px]]  
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<div style="background:#ACD6FF; border-bottom:1px solid #66B3FF; padding:0.2em 0.5em; font-size:125%; font-weight:bold;">Extensively curated</div>
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Based on genomic location, we classified lncRNAs into seven groups (Ma etal. 2013, RNA Biology) ('''Intergenic''', '''Intronic (S)''','''Intronic (AS)''','''Overlapping (S)''','''Overlapping (AS)''', '''Sense''' and '''Antisense''') based on their genomic location in respect to protein-coding genes. [[Help:Contents#Database content|''Help'']]
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<br /></div>
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* [[NONHSAT028508|''HOTAIR'']]
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* [[ENST00000534336.1|''MALAT-1'']]
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* [[NONHSAT017465|''H19'']]
  
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<!-----------------Small protein---------------------->
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* [[NONHSAT039745|''MEG3'']]
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|valign="top" style="border:1px solid #66B3FF; background-color:transparent; "|
 
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<div style="background:#ACD6FF; border-bottom:1px solid #66B3FF; padding:0.2em 0.5em; font-size:125%; font-weight:bold;">Small protein</div>
 
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<div style="padding:0.5em 0.5em;">[[File:SmallPRO-1.png|center|380px]]
 
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We developed computational approaches for identification of small proteins in all the human lncRNAs in LncRNAWiki. As a result, we identified '''9,387''' lncRNAs potentially encoding small proteins and we further validated '''2,246''' such small proteins with high confidence by considering protein instability, secondary structure and transmembrane helix ([[LncRNAWiki:small proteins|lncRNAs and small proteins]], [[Help:Contents#Database content|help]]).
 
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<br /></div>
 
  
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* [[ENST00000501122.2|''NEAT1'']]
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* [[ENST00000513868.2|''PVT1'']]
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* [[NONHSAT007663|''GAS5'']]
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* [[Lnc-C9orf53-2:1|''CDKN2B-AS1'']]
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* [[NONHSAT119717|''HOTTIP'']]
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* [[NONHSAT113149|''7SK'']]
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|style="width:33%;|
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* [[BANCR|''BANCR'']]
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* [[BTG3-AS1|''BTG3-AS1'']]
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* [[CERNA2|''CERNA2'']]
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* [[FLICR|''FLICR'']]
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* [[GUARDIN|''GUARDIN'']]
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* [[LINC-ROR|''LINC-ROR'']]
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* [[PINCR|''PINCR'']]
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* [[PLUT|''PLUT'']]
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* [[LUNAR1|''LUNAR1'']]
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* [[Lnc-SRA1-1:1|''SRA'']]
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|style="width:34%;|
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* [[NONHSAT017524|''KCNQ1OT1'']]
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* [[NONHSAT076153|''PCGEM1'']]
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* [[NONHSAT137541|''XIST'']]
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* [[Lnc-EPCAM-1:2|''BCYRN1'']]
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* [[NONHSAT084827|''TUG1'']]
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* [[Lnc-OR10H5-1:1|''UCA1'']]
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* [[NONHSAT107640|''HULC'']]
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* [[NONHSAT129019|''PRNCR1'']]
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* [[TP53COR1|''TP53COR1'']]
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* [[Lnc-CDKN1A-1:1|''PANDAR'']]
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|}
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<!-----------------Function---------------------->
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|valign="top" style="border:1px solid #66B3FF; background-color:transparent;"|
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<div style="background:#ACD6FF; border-bottom:1px solid #66B3FF; padding:0.2em 0.5em; font-size:125%; font-weight:bold;">[https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&functional_mechanism= Functional mechanism]</div>
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<div style="padding:0.5em 0.5em;">
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''Functional mechanisms and their associated lncRNAs' counts are listed below.''
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* [https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&functional_mechanism=ceRNA ceRNA]: 194
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* [https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&functional_mechanism=Transcriptional%20regulation Transcriptional regulation]: 85
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* [https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&functional_mechanism=Epigenetic%20regulation Epigenetic regulation]: 84
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* [https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&functional_mechanism=Post-transcriptional%20regulation Post-transcriptional regulation]: 12
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* [https://ngdc.cncb.ac.cn/lncrnawiki/browse?flag=True&functional_mechanism=Translational%20regulation Translational regulation]: 2
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</div>
 
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<!------------- Participating---------------->
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<div style="background:#ACD6FF; border-bottom:1px solid #66B3FF; padding:0.2em 0.5em; font-size:125%; font-weight:bold;">How to Cite</div>
 
<div style="background:#ACD6FF; border-bottom:1px solid #66B3FF; padding:0.2em 0.5em; font-size:125%; font-weight:bold;">How to Cite</div>
 
<div style="padding:0.5em 1em;">
 
<div style="padding:0.5em 1em;">
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If you use any data or information in your work, please cite the following primary publication:
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If you use any data or information in your work, please cite the following publications.
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* Lina Ma, Ang Li, Dong Zou, Xingjian Xu, Lin Xia, Jun Yu, Vladimir B. Bajic and Zhang Zhang. [http://nar.oxfordjournals.org/content/early/2014/11/15/nar.gku1167.full '''LncRNAWiki: harnessing community knowledge in collaborative curation of human long non-coding RNAs'''.] (2015) ''Nucleic Acids Research'', 43:D187-92.
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Primary publication:
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* [http://nar.oxfordjournals.org/content/early/2014/11/15/nar.gku1167.full '''LncRNAWiki: harnessing community knowledge in collaborative curation of human long non-coding RNAs'''.] (2015) ''Nucleic Acids Research'', 43:D187-92.
  
 
Related publication:
 
Related publication:
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* BIG Data Center Members: [http://nar.oxfordjournals.org/content/early/2016/11/28/nar.gkw1060.full '''The BIG Data Center: from deposition to integration to translation'''.] ''Nucleic Acids Research'' 2017, accepted and in press.
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* [https://currentprotocols.onlinelibrary.wiley.com/doi/abs/10.1002/cpbi.82 '''Community Curation and Expert Curation of Human Long Noncoding RNAs with LncRNAWiki and LncBook'''.] '' Curr Protoc Bioinformatics 2019''.
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* Lina Ma, Vladimir B. Bajic, Zhang Zhang. [https://www.landesbioscience.com/journals/rnabiology/article/24604/?nocache=227993923 '''On the classification of long non-coding RNAs'''.] (2013) ''RNA Biology'', 10(6),924-933.
 
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<!-------------Lab Information-------------->
 
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<div style="background:#ACD6FF; border-bottom:1px solid #66B3FF; padding:0.2em 0.5em; font-size:125%; font-weight:bold;">About Us</div>
 
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<div style="padding:0.5em 1em;">Our group works in the field of [http://cbb.big.ac.cn Computational Biology and Bioinformatics] (CBB), currently with a particular focus on building biological knowledge wikis in aid of community curation of massive biological knowledge.
 
 
</div>
 
</div>
  

Latest revision as of 10:38, 18 September 2021



Welcome to LncRNAWiki 1.0
106,063 human long non-coding RNAs inside
News2.png
Introduction

LncRNAWiki is a wiki-based, publicly editable and open-content platform for community curation of human long non-coding RNAs (lncRNAs), viz., a community-curated lncRNA knowledgebase. Unlike conventional biological databases based on expert curation, lncRNAWiki harnesses collective intelligence to collect, edit and annotate information about lncRNAs, quantifies users' contributions in each annotated lncRNA and provides explicit authorship to encourage more participation from the whole scientific community.

LncRNAWiki, an important component of LncBook, provides community annotations of human lncRNAs
Homepage-2020.png
Extensively curated

Functional mechanisms and their associated lncRNAs' counts are listed below.


How to Cite

If you use any data or information in your work, please cite the following publications.

Primary publication:

Related publication:

Visitor Statistics

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