ReAlignerV

To Author's Home

PRIVATE

NOTICE

• Jun 20, 2010: ReAlignerVR (RAVR.1.1.1): Derived from RAV.8.1.4 for aligning 3'UTR sequences (RAVR.1.1.1), not for on-web. Outline of RAVR.1.1.1.
• Mar 16, 2010: ReAlignerV command-line version minor update (RAV.8.1.5), not for on-web. RAV.8.1.5 revision detail.
• Nov 16, 2009: Human-Mouse Orthologs 5169 was uploaded at HMO_5169
• Feb 22, 2008: ReAlignerV article was published in BMC Bioinformatics. 9(1):112, Iwama H. et al.
• Dec 9, 2007: ReAlignerV has been up-versioned (RAV.8.1.4), for both on-web and command-line programs.
• Dec 9, 2007: ReAlignerV Test dataset has been renewed.
• Nov. 5, 2007: ReAlignerV services have been completely restarted, following completion of the campus network overhaul.

ReAlignerV is an alignment tool focusing on genomic nucleotide sequences upstream of genes.
ReAlignerV integrates TRANSFAC(R) Match(TM) results to detect the conserved TFBSs.
ReAlignerV is robust against transposable element insertions.
ReAlignerV integrates RepeatMasker annotation results, which facillitates detection of conserved TFBSs located within the transposable elements.

ReAlignerV Web Services

Start-Up Instructions for Web ReAlignerV

Please make sure that the sequences to be submitted are NOT reverse-strand sequences! (Details)

• 2-species ReAlignerV
  ------------------------------> Test dataset
  
• 3-species ReAlignerV
  ------------------------------> Test dataset
  

FAQ

Command-Line ReAlignerV

• Download command-line ReAlignerV (RAV.8.1.4) and the Test dataset.
• Instructions --> PDF

If you publish results obtained by using ReAlignerV either through web or by locally installed settings,
please cite BMC Bioinformatics. 9(1):112, Iwama H. et al.

REALIGNER

REALIGNER is an aligner implemented in ReAlignerV.
Download REALIGNER and the Test Set.
Instructions --> PDF
If you publish results obtained by using REALIGNER, please cite Iwama H & Gojobori T, PNAS 2004, 101(49):17156-17161.

Contact about ReAlignerV to the authors Hisakazu IWAMA, and about server technical problems to Yukio HORI.

Construction of ReAlignerV program and web services have been supported partly by NIG Cooperative Research Program (2007-A57) and partly by Nankai Scholarship Foundation.

Privacy policy