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Results: 1 to 20 of 205

1.

Inference of Gene Regulatory Networks Incorporating Multi-Source Biological Knowledge via a State Space Model with L1 Regularization.

Hasegawa T, Yamaguchi R, Nagasaki M, Miyano S, Imoto S.

PLoS One. 2014 Aug 27;9(8):e105942. doi: 10.1371/journal.pone.0105942. eCollection 2014.

PMID:
25162401
[PubMed - in process]
Free Article
2.

Validation of multiple single nucleotide variation calls by additional exome analysis with a semiconductor sequencer to supplement data of whole-genome sequencing of a human population.

Motoike IN, Matsumoto M, Danjoh I, Katsuoka F, Kojima K, Nariai N, Sato Y, Yamaguchi-Kabata Y, Ito S, Kudo H, Nishijima I, Nishikawa S, Pan X, Saito R, Saito S, Saito T, Shirota M, Tsuda K, Yokozawa J, Igarashi K, Minegishi N, Tanabe O, Fuse N, Nagasaki M, Kinoshita K, Yasuda J, Yamamoto M.

BMC Genomics. 2014 Aug 10;15:673. doi: 10.1186/1471-2164-15-673.

PMID:
25109789
[PubMed - in process]
Free Article
3.

SUGAR: graphical user interface-based data refiner for high-throughput DNA sequencing.

Sato Y, Kojima K, Nariai N, Yamaguchi-Kabata Y, Kawai Y, Takahashi M, Mimori T, Nagasaki M.

BMC Genomics. 2014 Aug 8;15:664. doi: 10.1186/1471-2164-15-664.

PMID:
25103311
[PubMed - in process]
Free PMC Article
4.

Clinical Development and Trial Design of Biosimilar Products: A Japanese Perspective.

Nagasaki M, Ando Y.

J Biopharm Stat. 2014 Jul 17. [Epub ahead of print]

PMID:
25033370
[PubMed - as supplied by publisher]
5.

ENPP2 contributes to adipose tissue expansion in diet-induced obesity.

Nishimura S, Nagasaki M, Okudaira S, Aoki J, Ohmori T, Ohkawa R, Nakamura K, Igarashi K, Yamashita H, Eto K, Uno K, Hayashi N, Kadowaki T, Komuro I, Yatomi Y, Nagai R.

Diabetes. 2014 Jun 26. pii: DB_131694. [Epub ahead of print]

PMID:
24969110
[PubMed - as supplied by publisher]
6.

An efficient method of exploring simulation models by assimilating literature and biological observational data.

Hasegawa T, Nagasaki M, Yamaguchi R, Imoto S, Miyano S.

Biosystems. 2014 Jul;121:54-66. doi: 10.1016/j.biosystems.2014.06.001. Epub 2014 Jun 5.

PMID:
24907678
[PubMed - in process]
7.

CSML2SBML: A novel tool for converting quantitative biological pathway models from CSML into SBML.

Li C, Nagasaki M, Ikeda E, Sekiya Y, Miyano S.

Biosystems. 2014 Jul;121:22-8. doi: 10.1016/j.biosystems.2014.05.004. Epub 2014 Jun 2.

PMID:
24881961
[PubMed - in process]
8.

Identification of acquired mutations by whole-genome sequencing in GATA-2 deficiency evolving into myelodysplasia and acute leukemia.

Fujiwara T, Fukuhara N, Funayama R, Nariai N, Kamata M, Nagashima T, Kojima K, Onishi Y, Sasahara Y, Ishizawa K, Nagasaki M, Nakayama K, Harigae H.

Ann Hematol. 2014 Sep;93(9):1515-22. doi: 10.1007/s00277-014-2090-4. Epub 2014 Apr 30.

PMID:
24782121
[PubMed - in process]
Free PMC Article
9.

iSVP: an integrated structural variant calling pipeline from high-throughput sequencing data.

Mimori T, Nariai N, Kojima K, Takahashi M, Ono A, Sato Y, Yamaguchi-Kabata Y, Nagasaki M.

BMC Syst Biol. 2013;7 Suppl 6:S8. doi: 10.1186/1752-0509-7-S6-S8. Epub 2013 Dec 13.

PMID:
24564972
[PubMed - in process]
Free PMC Article
10.

Adipose Natural Regulatory B Cells Negatively Control Adipose Tissue Inflammation.

Nishimura S, Manabe I, Takaki S, Nagasaki M, Otsu M, Yamashita H, Sugita J, Yoshimura K, Eto K, Komuro I, Kadowaki T, Nagai R.

Cell Metab. 2013 Oct 22. pii: S1550-4131(13)00386-0. doi: 10.1016/j.cmet.2013.09.017. [Epub ahead of print]

PMID:
24209772
[PubMed - as supplied by publisher]
11.

Involvement of heparan sulfate in the renoprotective effects of imidapril, an angiotensin-converting enzyme inhibitor, in diabetic db/db mice.

Yoneda H, Ueta K, Nagasaki M, Arakawa K.

J Recept Signal Transduct Res. 2014 Feb;34(1):21-5. doi: 10.3109/10799893.2013.845788. Epub 2013 Oct 4.

PMID:
24094140
[PubMed - in process]
12.

Profiling of microRNA in human and mouse ES and iPS cells reveals overlapping but distinct microRNA expression patterns.

Razak SR, Ueno K, Takayama N, Nariai N, Nagasaki M, Saito R, Koso H, Lai CY, Murakami M, Tsuji K, Michiue T, Nakauchi H, Otsu M, Watanabe S.

PLoS One. 2013 Sep 23;8(9):e73532. doi: 10.1371/journal.pone.0073532. eCollection 2013.

PMID:
24086284
[PubMed - indexed for MEDLINE]
Free PMC Article
13.

A statistical variant calling approach from pedigree information and local haplotyping with phase informative reads.

Kojima K, Nariai N, Mimori T, Takahashi M, Yamaguchi-Kabata Y, Sato Y, Nagasaki M.

Bioinformatics. 2013 Nov 15;29(22):2835-43. doi: 10.1093/bioinformatics/btt503. Epub 2013 Sep 3.

PMID:
24002111
[PubMed - indexed for MEDLINE]
14.

Recurrent mutations in multiple components of the cohesin complex in myeloid neoplasms.

Kon A, Shih LY, Minamino M, Sanada M, Shiraishi Y, Nagata Y, Yoshida K, Okuno Y, Bando M, Nakato R, Ishikawa S, Sato-Otsubo A, Nagae G, Nishimoto A, Haferlach C, Nowak D, Sato Y, Alpermann T, Nagasaki M, Shimamura T, Tanaka H, Chiba K, Yamamoto R, Yamaguchi T, Otsu M, Obara N, Sakata-Yanagimoto M, Nakamaki T, Ishiyama K, Nolte F, Hofmann WK, Miyawaki S, Chiba S, Mori H, Nakauchi H, Koeffler HP, Aburatani H, Haferlach T, Shirahige K, Miyano S, Ogawa S.

Nat Genet. 2013 Oct;45(10):1232-7. doi: 10.1038/ng.2731. Epub 2013 Aug 18.

PMID:
23955599
[PubMed - indexed for MEDLINE]
15.

TIGAR: transcript isoform abundance estimation method with gapped alignment of RNA-Seq data by variational Bayesian inference.

Nariai N, Hirose O, Kojima K, Nagasaki M.

Bioinformatics. 2013 Sep 15;29(18):2292-9. doi: 10.1093/bioinformatics/btt381. Epub 2013 Jul 2.

PMID:
23821651
[PubMed - indexed for MEDLINE]
16.

An evaluation of the diagnostic and prognostic significance of p16(INK4a) /p21(WAF1/Cip1) immunostaining in squamous intraepithelial lesions of the uterine cervix using liquid-based cytology specimens.

Ishida K, Araki A, Kobayashi M, Taniyama K, Nabika T, Nagasaki M.

Diagn Cytopathol. 2014 Feb;42(2):125-33. doi: 10.1002/dc.23008. Epub 2013 Jun 11.

PMID:
23754829
[PubMed - indexed for MEDLINE]
17.

Medium-chain fatty acid-sensing receptor, GPR84, is a proinflammatory receptor.

Suzuki M, Takaishi S, Nagasaki M, Onozawa Y, Iino I, Maeda H, Komai T, Oda T.

J Biol Chem. 2013 Apr 12;288(15):10684-91. doi: 10.1074/jbc.M112.420042. Epub 2013 Feb 28.

PMID:
23449982
[PubMed - indexed for MEDLINE]
Free PMC Article
18.

Wnt3a stimulates maturation of impaired neutrophils developed from severe congenital neutropenia patient-derived pluripotent stem cells.

Hiramoto T, Ebihara Y, Mizoguchi Y, Nakamura K, Yamaguchi K, Ueno K, Nariai N, Mochizuki S, Yamamoto S, Nagasaki M, Furukawa Y, Tani K, Nakauchi H, Kobayashi M, Tsuji K.

Proc Natl Acad Sci U S A. 2013 Feb 19;110(8):3023-8. doi: 10.1073/pnas.1217039110. Epub 2013 Feb 4.

PMID:
23382209
[PubMed - indexed for MEDLINE]
Free PMC Article
19.

ChopSticks: High-resolution analysis of homozygous deletions by exploiting concordant read pairs.

Yasuda T, Suzuki S, Nagasaki M, Miyano S.

BMC Bioinformatics. 2012 Oct 30;13:279. doi: 10.1186/1471-2105-13-279.

PMID:
23110596
[PubMed - indexed for MEDLINE]
Free PMC Article
20.

XiP: a computational environment to create, extend and share workflows.

Nagasaki M, Fujita A, Sekiya Y, Saito A, Ikeda E, Li C, Miyano S.

Bioinformatics. 2013 Jan 1;29(1):137-9. doi: 10.1093/bioinformatics/bts630. Epub 2012 Oct 25.

PMID:
23104885
[PubMed - indexed for MEDLINE]
Free PMC Article

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