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Systems Immunology Laboratory
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We analyze the adaptive immune repertoire to better understand cancer and other diseases, aiming to enhance early detection and personalized treatment strategies.</p> <p>Additionally, we collaborate closely with experimentalists to gain structural insights into the functions of biological macromolecules. This interdisciplinary approach allows us to bridge the gap between theoretical research and practical applications, contributing to advancements in medical science.</p> <h4 style="text-align: center;">2. <b>Multiple sequence alignment</b></h4> <p>Multiple sequence alignment (MSA) is an important step in many comparative analyses of biological sequences, and MAFFT is one of the most popular programs for building MSAs. Since the first release in 2002, we have been actively developing the standalone and online versions of MAFFT to improve their accuracy, speed and utility in practical situations, and have provided different options for newly emerging types of data and analysis.</p> <p>Recently-added features to the MAFFT program include interactive selection of sequences for phylogenetic tree inference, parallel processing to make more accurate options applicable to a larger number of sequences and respond to the demands of large-scale analysis and new options specifically for virus genome alignment including SARS-CoV-2.</p> </div></div></div> <div class="container"><div class="row"><div class="col-sm-12"> <h4 dir="ltr" style="text-align: center;">Highly-Cited Papers in Web of Science (Top 0.1%) </h4> <ul> <li>K Katoh, J Rozewicki, and KD Yamada "MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization", Briefings in Bioinformatics, vol. 20 no. 14 (2019) <ul> <li><a href="https://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=RID&SrcApp=RID&DestLinkType=FullRecord&DestApp=ALL_WOS&KeyUT=000493041400010">Web of Science (requires subscription)</a></li> <li><a href="https://www.ncbi.nlm.nih.gov/pubmed/28968734">PubMed</a></li> </ul> </li> </ul> <h4 style="text-align: center;">Kazutaka Katoh & MAFFT in Nikkei Sangyo Shimbun</h4> <ul> <li>Kazutaka Katoh, author of the MAFFT multiple alignment software, was recently profiled by a journalist from Nikkei Sangyo Shimbun. <ul> <li><a href="https://www.nikkei.com/article/DGXMZO50052990Q9A920C1X90000/">Article on Nikkei.com</a></li> </ul> </li> </ul> <h4 style="text-align: center;">Highly-Cited Papers in Web of Science (Top 1%) </h4> <ul> <li>J Rozewicki, S Li, KM Amada, DM Standley and K Katoh, "MAFFT-DASH: integrated protein sequence and structural alignment", Nucleic Acids Research, no.47 (2019) <ul> <li><a href="http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=RID&SrcApp=RID&DestLinkType=FullRecord&DestApp=ALL_WOS&KeyUT=000475901600002">Web of Science (requires subscription)</a></li> <li><a href="https://pubmed.ncbi.nlm.nih.gov/31062021/">PubMed</a></li> </ul> </li> <li>T Nakamura, KD Yamada, K Tomii and K Katoh, "Parallelization of MAFFT for large-scale multiple sequence alignments", Bioinformatics 34, no.14 (2018) <ul> <li><a href="http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=RID&SrcApp=RID&DestLinkType=FullRecord&DestApp=ALL_WOS&KeyUT=000438248700022">Web of Science (requires subscription)</a></li> <li><a href="https://www.ncbi.nlm.nih.gov/pubmed/29506019">PubMed</a></li> </ul> </li> <li>K Katoh and DM Standley, "A simple method to control over-alignment in the MAFFT multiple sequence alignment program", Bioinformatics 32, no.13 (2016) <ul> <li><a href="http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=RID&SrcApp=RID&DestLinkType=FullRecord&DestApp=ALL_WOS&KeyUT=000379761500003">Web of Science (requires subscription)</a></li> <li><a href="http://www.ncbi.nlm.nih.gov/pubmed/27153688">PubMed</a></li> </ul> </li> </ul> </div></div></div> </div> </div> <div id="back-top"> <a href="#page-top"><img src="/packages/rimd_lab/themes/rimd_lab/images/footer_pagetop.png" alt="PAGETOP" /></a> </div> <footer id="seren-footer" class="footer"> <div id="seren-bottom-footer"> <div> <p style="margin: 0px auto; 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