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MNX1-HNF1B Axis Is Indispensable for Intraductal Papillary Mucinous Neoplasm Lineages.
Kato H, Tateishi K, Fujiwara H, Nakatsuka T, Yamamoto K, Kudo Y, Hayakawa Y, Nakagawa H, Tanaka Y, Ijichi H, Otsuka M, Iwadate D, Oyama H, Kanai S, Noguchi K, Suzuki T, Sato T, Hakuta R, Ishigaki K, Saito K, Saito T, Takahara N, Kishikawa T, Hamada T, Takahashi R, Miyabayashi K, Mizuno S, Kogure H, Nakai Y, Hirata Y, Toyoda A, Ichikawa K, Qu W, Morishita S, Arita J, Tanaka M, Ushiku T, Hasegawa K, Fujishiro M, Koike K. Kato H, et al. Among authors: ichikawa k. Gastroenterology. 2022 Apr;162(4):1272-1287.e16. doi: 10.1053/j.gastro.2021.12.254. Epub 2021 Dec 22. Gastroenterology. 2022. PMID: 34953915
A linear time algorithm for detecting long genomic regions enriched with a specific combination of epigenetic states.
Ichikawa K, Morishita S. Ichikawa K, et al. BMC Genomics. 2015;16 Suppl 2(Suppl 2):S8. doi: 10.1186/1471-2164-16-S2-S8. Epub 2015 Jan 21. BMC Genomics. 2015. PMID: 25708947 Free PMC article.
The program that implements the method is called "CSMinfinder" and is made available at: http://mlab.cb.k.u-tokyo.ac.jp/~ichikawa/Segmentation/...
The program that implements the method is called "CSMinfinder" and is made available at: http://mlab.cb.k.u-tokyo.ac.jp/~ichikawa …
A Simple but Powerful Heuristic Method for Accelerating k-Means Clustering of Large-Scale Data in Life Science.
Ichikawa K, Morishita S. Ichikawa K, et al. IEEE/ACM Trans Comput Biol Bioinform. 2014 Jul-Aug;11(4):681-92. doi: 10.1109/TCBB.2014.2306200. IEEE/ACM Trans Comput Biol Bioinform. 2014. PMID: 26356339
These two distance measurements are equivalent in the sense that they yield the same k-means clustering result for identical sets of k initial centroids. ...The BoostKCP software is available at http://mlab.cb.k.u-tokyo.ac.jp/~ichikawa/boostKCP/....
These two distance measurements are equivalent in the sense that they yield the same k-means clustering result for identical sets of …
AgIn: measuring the landscape of CpG methylation of individual repetitive elements.
Suzuki Y, Korlach J, Turner SW, Tsukahara T, Taniguchi J, Qu W, Ichikawa K, Yoshimura J, Yurino H, Takahashi Y, Mitsui J, Ishiura H, Tsuji S, Takeda H, Morishita S. Suzuki Y, et al. Among authors: ichikawa k. Bioinformatics. 2016 Oct 1;32(19):2911-9. doi: 10.1093/bioinformatics/btw360. Epub 2016 Jun 17. Bioinformatics. 2016. PMID: 27318202 Free PMC article.
Finding long tandem repeats in long noisy reads.
Morishita S, Ichikawa K, Myers EW. Morishita S, et al. Among authors: ichikawa k. Bioinformatics. 2021 May 5;37(5):612-621. doi: 10.1093/bioinformatics/btaa865. Bioinformatics. 2021. PMID: 33031558 Free PMC article.
Phase-separated nuclear bodies of nucleoporin fusions promote condensation of MLL1/CRM1 and rearrangement of 3D genome structure.
Oka M, Otani M, Miyamoto Y, Oshima R, Adachi J, Tomonaga T, Asally M, Nagaoka Y, Tanaka K, Toyoda A, Ichikawa K, Morishita S, Isono K, Koseki H, Nakato R, Ohkawa Y, Yoneda Y. Oka M, et al. Among authors: ichikawa k. Cell Rep. 2023 Aug 29;42(8):112884. doi: 10.1016/j.celrep.2023.112884. Epub 2023 Jul 29. Cell Rep. 2023. PMID: 37516964 Free article.
Recompleting the Caenorhabditis elegans genome.
Yoshimura J, Ichikawa K, Shoura MJ, Artiles KL, Gabdank I, Wahba L, Smith CL, Edgley ML, Rougvie AE, Fire AZ, Morishita S, Schwarz EM. Yoshimura J, et al. Among authors: ichikawa k. Genome Res. 2019 Jun;29(6):1009-1022. doi: 10.1101/gr.244830.118. Epub 2019 May 23. Genome Res. 2019. PMID: 31123080 Free PMC article.
1,480 results