Table 1. PTR resources presented in the review.
| Name | Ref | Last update | Batch mode | Data download | Organisms | Link |
|---|---|---|---|---|---|---|
| ARED |
25 |
Mar 2011 |
v |
x |
HSA, MMU |
http://brp.kfshrc.edu.sa/ARED/ |
| AREsite |
26 |
Nov 2010 |
x |
v |
HSA, MMU |
http://rna.tbi.univie.ac.at/AREsite |
| AURA |
13 |
Nov 2011 |
x |
v |
HSA |
http://aura.science.unitn.it/ |
| CLIPZ |
15 |
Jan 2011 |
v |
v |
HSA, MMU, CEL |
http://www.clipz.unibas.ch/ |
| DIANA-miRPath |
38 |
Mar 2012 |
v |
x |
HSA, MMU |
http://www.microrna.gr/miRPathv2 |
| doRiNa |
31 |
May 2012 |
v |
v |
HSA, MMU, DME, CEL |
http://dorina.mdc-berlin.de |
| IRESite |
27 |
Apr 2011 |
x |
x |
HSA, MMU, RNO, DME, SCE and 4 more |
http://iresite.org/ |
| lncRNAdb |
22 |
Jul 2011 |
x |
v |
HSA, MMU, DME, CEL, ATH, XLA, SCE and 53 more |
http://lncrnadb.com/ |
| miRanda |
36 |
Nov 2010 |
v |
V |
HSA, MMU, RNO, DME, CEL |
http://www.microrna.org/microrna/home.do |
| MAGIA2 |
24 |
Apr 2012 |
v |
X |
HSA, MMU, RNO, DME |
http://gencomp.bio.unipd.it/magia2 |
| miRConnX |
39 |
Jul 2011 |
v |
v |
HSA, MMU |
http://mirconnx.csb.pitt.edu/ |
| miRecords |
18 |
Nov 2010 |
x |
v |
HSA, MMU, RNO, DME, CEL, GGA, DRE, OAR, CFA |
http://mirecords.biolead.org/ |
| miRGator |
23 |
Jan 2011 |
v |
x |
HSA |
http://mirgator.kobic.re.kr |
| miRNAMap |
19 |
Jul 2007 |
x |
v |
HSA, MMU, RNO, DME, CEL, XTR and 4 more |
http://mirnamap.mbc.nctu.edu.tw/ |
| miRTarBase |
17 |
Oct 2011 |
x |
v |
HSA, MMU, RNO, DME, CEL, ATH, XLA and 7 more |
http://mirtarbase.mbc.nctu.edu.tw/ |
| NONCODE |
21 |
Jan 2012 |
x |
v |
HSA, MMU, DME, CEL, ATH, XLA and 1233 more |
http://www.noncode.org |
| NRED |
24 |
Sep 2008 |
x |
v |
HSA, MMU |
http://jsm-research.imb.uq.edu.au/nred |
| PicTar |
35 |
Mar 2007 |
x |
v |
HSA, MMU, DME, CEL |
http://pictar.mdc-berlin.de/ |
| PITA |
37 |
Aug 2008 |
v |
v |
HSA, MMU, DME, CEL |
http://genie.weizmann.ac.il/pubs/mir07/mir07_data.html |
| RBPDB |
14 |
Jan 2011 |
x |
v |
HSA, MMU, DME, CEL |
http://rbpdb.ccbr.utoronto.ca/ |
| Rfam |
30 |
Jun 2011 |
x |
v |
HSA, MMU, DME, CEL, ATH, SCE and 3104 more |
http://rfam.sanger.ac.uk/ |
| SelenoDB |
28 |
Sep 2007 |
x |
v |
HSA, MMU, DME, CEL, SCE and 3 more |
http://www.selenodb.org/ |
| SIREs |
33 |
Jan 2010 |
v |
x |
any |
http://ccbg.imppc.org/sires/ |
| starBase |
16 |
Sep 2011 |
x |
v |
HSA, MMU, CEL, ATH, OSA, VME |
http://starbase.sysu.edu.cn/ |
| TargetScan |
34 |
Mar 2012 |
x |
v |
HSA, MMU, CEL, DRE |
http://www.targetscan.org/ |
| Transterm |
32 |
Oct 2011 |
v |
x |
any |
http://mrna.otago.ac.nz/ |
| UTRdb/UTRsite | 12 | Oct 2009 | v | v | HSA, MMU, DME, CEL, ATH, XLA and 73 more | http://utrdb.ba.itb.cnr.it/ |
The table shows the list of databases and tools presented in the review: for each of them we report the last update (or publication date when the former is not available) along with the reference number in the manuscript, the resource website address, the organisms for which the resource provides data (listed by their three-letters code), the possibility to do a batch analysis (searching for more than one gene/element at a time) and to download the whole database.