生命情報工学研究センター[CBRC]

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2012/04/16

4月16日（月）平成24年度e-ラーニング受付開始

2011/12/28

CBRC実習生・辻淳子さんが CSH Asia 2011 で最優秀ポスター賞に選ばれました

2011/12/28

配列セグメントとアラインメントを操作するツール「seg-suite」を追加しました

2011/12/28

配列の単発的データ処理を便利にするツール「fastapl, fastqpl」を追加しました

2011/12/28

ヒトゲノム予測構造・機能アノテーションデータベース「SAHG」を追加しました

2011/12/28

RNA Seq などの公開データにシーケンサーエラーを考慮した補正を加えた二次データベース「RecountDB」を追加しました

2011/11/01

プレスリリース：秘密計算による化合物データベースの検索技術

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最近の論文など

Gromiha, M.M., Huang, L.T.: “Machine learning algorithms for predicting protein folding rates and stability of mutant proteins: comparison with statistical methods", CURRENT PROTEIN & PEPTIDE SCIENCE, 12(6), pp.490-502 (2011). [Link]

Whitington, T., Frith, M.C., Johnson, J., Bailey, T.L.: “Inferring transcription factor complexes from ChIP-seq data", NUCLEIC ACIDS RESEARCH, 39(15), e98 (2011). [Link]

Hamada, M., Yamada, K., Sato, K., Frith, M.C., Asai, K.: “CentroidHomfold-LAST: Accurate prediction of RNA secondary structure using automatically collected homologous sequences", NUCLEIC ACIDS RESEARCH, 39(2), w100-106 (2011). [Link]

Hirose, S., Kawamura, Y., Yokota, K., Kuroita, T., Natsume, T., Komiya, K., Tsutsumi, T., Suwa, Y., Isogai, T., Goshima, N., Noguchi, T.: “Statistical analysis of features associated with protein expression/solubility in an in vivo Escherichia coli expression system and a wheat germ cell-free expression system", JOURNAL OF BIOCHEMISTRY, 150(1), pp.73-81 (2011). [Link]

Fu, S.C., Imai, K., Horton, P.: “Prediction of leucine-rich nuclear export signal containing proteins with NESsential", NUCLEIC ACIDS RESEARCH, 39(16), e.111 (2011). [Link]

Chang, C.W., Lyu, P.C., Arita, M.: “Reconstructing phylogeny from metabolic substrate-product relationships", BMC BIOINFORMATICS, 12(1),S27 (2011). [Link]

Gromiha, M.M., Fukui, K.: “Scoring Function Based Approach for Locating Binding Sites and Understanding Recognition Mechanism of Protein-DNA Complexes", JOURNAL OF CHEMICAL INFORMATION AND MODELING, 51(3),pp.721-729(2011). [Link]

Gromiha, M.M., Saranya, N., Selvaraj, S., Jayaram, B., Fukui, K.: “Sequence and structural features of binding site residues in protein-protein complexes: comparison with protein-nucleic acid complexes.", PROTEOME SCIENCE, 9(1),pp.1-6(2011). [Link]

Tabei, Y., Tsuda, K.: “SketchSort: Fast All Pairs Similarity Search for Large Databases of Molecular Fingerprints", MOLECULAR INFORMATICS, 30(9),pp.801-807(2011). [Link]

Kam-Thong, T., Czamara, D., Tsuda, K., Borgwardt, K., Lewis, C.M., Erhardt-Lehmann, A., Hemmer, B., Rieckmann, P., Daake, M., Weber, F., Wolf, C., Ziegler, A., Putz, B., Holsboer, F., Scholkopf, B., Muller-Myhsok, B.: “EPIBLASTER-Fast exhaustive two-locus epistasis detection strategy using graphical processing units", EUROPEAN JOURNAL OF HUMAN GENETICS, 19pp.465-471 (2011). [Link]

Ikeda, K., Kameda, T., Harada, E., Akutsu, H., Fujiwara, T.: “ROS-DET: robust detector of switching mechanisms in gene expression", NUCLEIC ACIDS RESEARCH, 39(11)e74 (2011). [Link]

Kayano, M., Takigawa, I., Shiga, M., Tsuda, K., Mamitsuka, H.: “Combined Use of Replica-Exchange Molecular Dynamics and Magic-Angle-Spinning Solid-State NMR Spectral Simulations for Determining the Structure and Orientation of Membrane-Bound Peptide", JOURNAL OF PHYSICAL CHEMISTRY B, 115(29)pp.9327-36 (2011). [Link]

Hamada, M., Wijaya, E., Frith, M.C., Asai, K.: “Probabilistic alignments with quality scores: An application to short-read mapping toward accurate SNP/indel detection", BIOINFORMATICS, 27(22)pp.3985-92 (2011). [Link]

Shibata, K., Yamada, H., Sato, T., Dejima, T., Nakamura, M., Ikawa, T., Hara, H., Yamasaki, S., Kageyama, R., Iwakura, Y., Kawamoto, H., Toh, H., Yoshikai, Y.: “Notch-Hes1 pathway is required for the development of IL-17-producing γδ T cells", Blood, 118(3)pp.586-593 (2011). [Link]

Totsukawa, G., Kaneko, Y., Uchiyama, K., Toh, H., Tamura, K., Kondo, H.: “VCIP135 deubiquitinase and its binding protein, WAC, in p97 ATPase-mediated membrane fusion", EMBO Journal, 30(17)pp.3581-93 (2011).

Hatano, A., Chiba, H., Moesa, H.A., Taniguchi, T., Nagaie, S., Yamanegi, K., Takai-Igarashi, T., Tanaka, H., Fujibuchi, W.: “CELLPEDIA: a repository for human cell information for cell studies and differentiation analyses", DATABASE, doi: 10.1093/database/bar046 (2011). [Link]

Shinohara, R., Akimoto, T., Iwamoto, O., Hirokawa, T., Yotsu-Yamashita, M., Yamaoka, K., Nagasawa, K.: “Synthesis of Skeletal Analogues of Saxitoxin Derivatives and Evaluation of Their Inhibitory Activity on Sodium Ion Channels Na(V) 1.4 and Na(V) 1.5", CHEMISTRY-A EUROPEAN JOURNAL, 17(43)pp.12144-12152 (2011). [Link]

Hitaoka, S., Matoba, H., Harada, M., Yoshida, T., Tsuji, D., Hirokawa, T., Itoh, K., Chuman, H.: “Correlation Analyses on Binding Affinity of Sialic Acid Analogues and Anti-Influenza Drugs with Human Neuraminidase Using ab Initio MO Calculations on Their Complex Structures - LERE-QSAR Analysis (IV)", JOURNAL OF CHEMICAL INFORMATION AND MODELING, 51(17)pp.2706-2716 (2011). [Link]

Adachi, H., Ishiguro, A., Hamada, M., Sakota, E., Asai, K., Nakamura, Y.: “Antagonistic RNA aptamer specific to a heterodimeric form of human interleukin-17A/F.", BIOCHIMIE, 93(7)pp.1081-1088 (2011). [Link]

Kiryu, H., Terai, G., Imamura, O., Yoneyama, H., Suzuki, K., Asai, K.: “A detailed investigation of accessibilities around target sites of siRNAs and miRNAs", BIOINFORMATICS, 27(13)pp.1788-1797 (2011). [Link]

Frith, M.C.: “Gentle masking of low-complexity sequences improves homology searchs", PLOS ONE, 6(12)e28819(2011). [Link]

Fukui, K., Takahashi, K.: “Infrared multiple photon dissociation (IRMPD) Spectroscopy and Computational Studies of O-Glycosylated Peptides", ANALYTICAL CHEMISTRY, DOI: 10.1021/ac202379v(2011). [Link]

Katayama, T., Arakawa, K., Nakao, M., Ono, K., Aoki-Kinoshita, K.F., Yamamoto, Y., Yamaguchi, A., Kawashima, S., Chun, H.W., Aerts, J., Aranda, B., Barboza, L.H., Bonnal, R.J., Bruskiewich, R., Bryne, J.C., Fernandez, J.M., Funahashi, A., Gordon, P.M., Goto, N., Groscurth, A., Gutteridge, A., Holland, R., Kano, Y., Kawas, E.A., Kerhornou, A., Kibukawa, E., Kinjo, A.R., Kuhn, M., Lapp, H., Lehvaslaiho, H., Nakamura, H., Nakamura, Y., Nishizawa, T., Nobata, C., Noguchi, T., Oinn, T.M., Okamoto, S., Owen, S., Pafilis, E., Pocock, M., Prins, P., Ranzinger, R., Reisinger, F., Salwinski, L., Schreiber, M., Senger, M., Shigemoto, Y., Standley, D.M., Sugawara, H., Tashiro, T., Trelles, O., Vos, R.A., Wilkinson, M.D., York, W., Zmasek, C.M., Asai, K., Takagi, T.: “The DBCLS BioHackathon: standardization and interoperability for bioinformatics web services and workflows. The DBCLS BioHackathon Consortium*.", Journal of Biomedical Semantics, 1(8),doi:10.1186/2041-1480-1-8 (2010). [Link]

2012.2.14 更新

産総研紹介ビデオ「生命情報工学研究センター」