The possibility that anesthesia during cancer surgery may affect cancer recurrence, metastasis, and patient prognosis has become one of the most important topic of interest in cancer treatment. For example, the volatile anesthetic isoflurane was r...
Sumi C, Okamoto A, Tanaka H, Kusunoki M, Shoji T, Uba T, Adachi T, Iwai T, Nishi K, Harada H, Bono H, Matsuo Y, Hirota K
Scientific Reports 8 8987 2018年6月 [査読有り]
A line of studies strongly suggest that the intravenous anesthetic, propofol, suppresses mitochondrial oxygen metabolism. It is also indicated that propofol induces the cell death in a reactive oxygen species (ROS)-dependent manner. Because hypoxi...
Piulats JM, Kondo J, Endo H, Ono H, Hagihara T, Okuyama H, Nishizawa Y, Tomita Y, Ohue M, Okita K, Oyama H, Bono H, Masuko T, Inoue M
Oncotarget 9 15968-15983 2018年3月 [査読有り]
Individual and small clusters of cancer cells may detach from the edges of a main tumor and invade vessels, which can act as the origin of metastasis; however, the mechanism for this phenomenon is not well understood. Using cancer tissue-originate...
Ichino F, Bono H, Nakazato T, Toyoda A, Fujiyama A, Iwabuchi K, Sato R, Tabunoki H
Drug Discoveries & Therapeutics 12(1) 7-15 2018年3月 [査読有り]
Human intestinal absorption is estimated using a human colon carcinoma cell line (Caco-2) cells from human colorectal adenocarcinoma, intestinal perfusion, or a mammalian model. These current evaluation systems are limited in their ability to esti...
Hypoxia is an insufficient level of oxygen supply in the cell, and hypoxia-inducible factor is a central regulator of oxygen homeostasis. In order to elucidate functional insights in hypoxic response in data-driven way, we attempted meta-analysis ...
Nakamura H, Bono H, Hiyama K, Kawamoto T, Kato Y, Nakanishi T, Nishiyama M, Hiyama E, Hirohashi N, Sueoka E, Poellinger L, Tanimoto K
PLOS ONE 13(2) e0192136 2018年2月 [査読有り]
Tumor hypoxia contributes to a biologically aggressive phenotype and therapeutic resistance. Recent studies have revealed that hypoxia reduces expression of several DNA damage recognition and repair (DRR) genes via both hypoxia-inducible factor (H...
Gene expression data are exponentially accumulating; thus, the functional annotation of such sequence data from metadata is urgently required. However, life scientists have difficulty utilizing the available data due to its sheer magnitude and com...
Okamoto A, Sumi C, Tanaka H, Kusunoki M, Iwai T, Nishi K, Matsuo Y, Harada H, Takenaga K, Bono H, Hirota K
Scientific Reports 7 3816 2017年6月 [査読有り]
The local anesthetic lidocaine induces cell death by altering reactive oxygen species (ROS) generation and mitochondrial electron transport chain function. Because hypoxia-inducible factor 1 (HIF-1) is involved in determining oxygen metabolism and...
It is important for public data repositories to promote the reuse of archived data. In the growing field of omics science, however, the increasing number of submissions of high-throughput sequencing (HTSeq) data to public repositories prevents use...
Lizio M, Harshbarger J, Abugessaisa I, Noguchi S, Kondo A, Severin J, Mungall C, Arenillas D, Mathelier A, Medvedeva YA, Lennartsson A, Drabløs F, Ramilowski JA, Rackham O, Gough J, Andersson R, Sandelin A, Ienasescu H, Ono H, Bono H, Hayashizaki Y, Carninci P, Forrest AR, Kasukawa T, Kawaji H
Nucleic Acids Research 45(D1) D737-D743 2017年1月 [査読有り]
Upon the first publication of the fifth iteration of the Functional Annotation of Mammalian Genomes collaborative project, FANTOM5, we gathered a series of primary data and database systems into the FANTOM web resource (http://fantom.gsc.riken.jp)...
1977年にサンガーらによってDNA配列決定法が発明 され，さまざまな生物由来の塩基配列の配列決定が可能になった.1980年代に入ってそれらをデータバンクにアーカイブする動きが日米欧で起こり，それぞれDDBJ(DNA Data Bank of Japan)，GenBank，EMBL-Bank (のちにENA(European Nucleotide Archive)に改名)という名前のデータベース(DB)が維持されるように なった.これらのDBはお互いにデータを交...
Molecular Targeted Therapy of Lung Cancer 97-115 2017年1月 [依頼有り]
Improvement of next-generation sequencing (NGS) has revealed novel driver genes and new therapeutic targets for cancer patients. We summarize here the history of NGS development, current situation of typical analysis pipeline utilizing NGS – espec...
次世代シークエンサー（NGS: next generation sequencer）の活躍によって，さまざまな生命科学の謎が解き明かされている．マイクロアレイ同様，NGSから得られるデータも公共データベースに収めることが論文投稿の条件となってきており，そのデータ量は約3.2ペタバイトにもなっている（ペタは10の15乗）．これまでよく用いられてきたBLASTなどの配列類似性による検索手段ではもはや歯がたたず，それぞれのデータの付帯情報であるメタデータをたよりに必要な情報を探し出すことになる．...
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