Tohoku University Tohoku Medical Megabank Organization (Yuichi Aoki)
2022.08.12

1.   Obayashi Takeshi, Hibara Himiko, Kagaya Yuki, et al. ATTED-II v11: A Plant Gene Coexpression Database Using a Sample Balancing Technique by Subagging of Principal Components. Plant and Cell Physiology. 2022; 63 (6): 869-881. doi:10.1093/pcp/pcac041  
2.   Saito Sakae, Aoki Yuichi, Tamahara Toru, et al. Oral Microbiome Analysis in Prospective Genome Cohort Studies of the Tohoku Medical Megabank Project. Frontiers in Cellular and Infection Microbiology. 2021; 10 : . doi:10.3389/fcimb.2020.604596  
3.   Mardani-Korrani Hossein, Nakayasu Masaru, Yamazaki Shinichi, et al. L-Canavanine, a Root Exudate From Hairy Vetch (Vicia villosa) Drastically Affecting the Soil Microbial Community and Metabolite Pathways. Frontiers in Microbiology. 2021; 12 : . doi:10.3389/fmicb.2021.701796  
4.   Ogishima Soichi, Nagaie Satoshi, Mizuno Satoshi, et al. dbTMM: an integrated database of large-scale cohort, genome and clinical data for the Tohoku Medical Megabank Project. Human Genome Variation. 2021; 8 (1): 44. doi:10.1038/s41439-021-00175-5  
5.   Shimasaki Tomohisa, Masuda Sachiko, Garrido-Oter Ruben, et al. Tobacco Root Endophytic Arthrobacter Harbors Genomic Features Enabling the Catabolism of Host-Specific Plant Specialized Metabolites. mBio. 2021; 12 (3): . doi:10.1128/mBio.00846-21  
6.   Otsuki Akihito, Okamura Yasunobu, Aoki Yuichi, et al. Identification of Dominant Transcripts in Oxidative Stress Response by a Full-Length Transcriptome Analysis. Molecular and Cellular Biology. 2021; 41 (2): . doi:10.1128/MCB.00472-20  
7.   Tadaka Shu, Hishinuma Eiji, Komaki Shohei, et al. jMorp updates in 2020: large enhancement of multi-omics data resources on the general Japanese population. Nucleic Acids Research. 2021; 49 (D1): D536-D544. doi:10.1093/nar/gkaa1034  
8.   Ho Hsin‐Jung, Kikuchi Koichi, Oikawa Daiki, et al. SGLT‐1‐specific inhibition ameliorates renal failure and alters the gut microbial community in mice with adenine‐induced renal failure. Physiological Reports. 2021; 9 (24): . doi:10.14814/phy2.15092  
9.   Waki Toshiyuki, Terashita Miho, Fujita Naoki, et al. Identification of the Genes Coding for Carthamin Synthase, Peroxidase Homologs that Catalyze the Final Enzymatic Step of Red Pigmentation in Safflower ( Carthamus tinctorius L.). Plant and Cell Physiology. 2021; 62 (10): 1528-1541. doi:10.1093/pcp/pcab122  
10.   Nakayasu Masaru, Ohno Kohei, Takamatsu Kyoko, et al. Tomato roots secrete tomatine to modulate the bacterial assemblage of the rhizosphere. Plant Physiology. 2021; 186 (1): 270-284. doi:10.1093/plphys/kiab069  
11.   Nakayasu Masaru, Yamazaki Shinichi, Aoki Yuichi, et al. Triterpenoid and Steroidal Saponins Differentially Influence Soil Bacterial Genera. Plants. 2021; 10 (10): 2189. doi:10.3390/plants10102189  
12.   Yamazaki Shinichi, Mardani-korrani Hossein, Kaida Rumi, et al. Field multi-omics analysis reveals a close association between bacterial communities and mineral properties in the soybean rhizosphere. Scientific Reports. 2021; 11 (1): 8878. doi:10.1038/s41598-021-87384-8  
13.   Sakurai-Yageta Mika, Kumada Kazuki, Gocho Chinatsu, et al. Japonica Array NEO with increased genome-wide coverage and abundant disease risk SNPs. The Journal of Biochemistry. 2021; 170 (3): 399-410. doi:10.1093/jb/mvab060  
14.   Hishinuma Eiji, Shimada Muneaki, Matsukawa Naomi, et al. Wide-Targeted Metabolome Analysis Identifies Potential Biomarkers for Prognosis Prediction of Epithelial Ovarian Cancer. Toxins. 2021; 13 (7): 461. doi:10.3390/toxins13070461  
15.   Saigusa Daisuke, Motoike Ikuko N., Saito Sakae, et al. Impacts of NRF2 activation in non–small‐cell lung cancer cell lines on extracellular metabolites. Cancer Science. 2020; 111 (2): 667-678. doi:10.1111/cas.14278  
16.   Koshiba Seizo, Motoike Ikuko N., Saigusa Daisuke, et al. Identification of critical genetic variants associated with metabolic phenotypes of the Japanese population. Communications Biology. 2020; 3 (1): 662. doi:10.1038/s42003-020-01383-5  
17.   Ishida Noriko, Aoki Yuichi, Katsuoka Fumiki, et al. Landscape of electrophilic and inflammatory stress-mediated gene regulation in human lymphoblastoid cell lines. Free Radical Biology and Medicine. 2020; 161 : 71-83. doi:10.1016/j.freeradbiomed.2020.09.023  
18.   Sakurai Nozomu, Mardani-Korrani Hossein, Nakayasu Masaru, et al. Metabolome Analysis Identified Okaramines in the Soybean Rhizosphere as a Legacy of Hairy Vetch. Frontiers in Genetics. 2020; 11 : . doi:10.3389/fgene.2020.00114  
19.   Waki Toshiyuki, Mameda Ryo, Nakano Takuya, et al. A conserved strategy of chalcone isomerase-like protein to rectify promiscuous chalcone synthase specificity. Nature Communications. 2020; 11 (1): 870. doi:10.1038/s41467-020-14558-9  
20.   Matsuda Hinako, Nakayasu Masaru, Aoki Yuichi, et al. Diurnal metabolic regulation of isoflavones and soyasaponins in soybean roots. Plant Direct. 2020; 4 (11): . doi:10.1002/pld3.286  
21.   Okutani Fuki, Hamamoto Shoichiro, Aoki Yuichi, et al. Rhizosphere modelling reveals spatiotemporal distribution of daidzein shaping soybean rhizosphere bacterial community. Plant, Cell & Environment. 2020; 43 (4): 1036-1046. doi:10.1111/pce.13708  
22.   Tsuboi Akito, Matsui Hiroyuki, Shiraishi Naru, et al. Design and Progress of Oral Health Examinations in the Tohoku Medical Megabank Project. The Tohoku Journal of Experimental Medicine. 2020; 251 (2): 97-115. doi:10.1620/tjem.251.97  
23.   Obayashi Takeshi, Kagaya Yuki, Aoki Yuichi, et al. COXPRESdb v7: a gene coexpression database for 11 animal species supported by 23 coexpression platforms for technical evaluation and evolutionary inference. Nucleic Acids Research. 2019; 47 (D1): D55-D62. doi:10.1093/nar/gky1155  
24.   Yasuda Jun, Kinoshita Kengo, Katsuoka Fumiki, et al. Genome analyses for the Tohoku Medical Megabank Project towards establishment of personalized healthcare. The Journal of Biochemistry. 2019; 165 (2): 139-158. doi:10.1093/jb/mvy096  
25.   Tadaka Shu, Saigusa Daisuke, Motoike Ikuko N., et al. jMorp: Japanese Multi Omics Reference Panel. Nucleic Acids Research. 2018; 46 (D1): D551-D557. doi:10.1093/nar/gkx978  
26.   Obayashi Takeshi, Aoki Yuichi, Tadaka Shu, et al. ATTED-II in 2018: A Plant Coexpression Database Based on Investigation of the Statistical Property of the Mutual Rank Index. Plant and Cell Physiology. 2018; 59 (1): e3-e3. doi:10.1093/pcp/pcx191  
27.   Aoki Yuichi, Okamura Yasunobu, Ohta Hiroyuki, et al. ALCOdb: Gene Coexpression Database for Microalgae. Plant and Cell Physiology. 2016; 57 (1): e3-e3. doi:10.1093/pcp/pcv190  
28.   Aoki Yuichi, Okamura Yasunobu, Tadaka Shu, et al. ATTED-II in 2016: A Plant Coexpression Database Towards Lineage-Specific Coexpression. Plant and Cell Physiology. 2016; 57 (1): e5-e5. doi:10.1093/pcp/pcv165  
29.   Okamura Yasunobu, Aoki Yuichi, Obayashi Takeshi, et al. COXPRESdb in 2015: coexpression database for animal species by DNA-microarray and RNAseq-based expression data with multiple quality assessment systems. Nucleic Acids Research. 2015; 43 (D1): D82-D86. doi:10.1093/nar/gku1163  
30.   Obayashi Takeshi, Okamura Yasunobu, Ito Satoshi, et al. ATTED-II in 2014: Evaluation of Gene Coexpression in Agriculturally Important Plants. Plant and Cell Physiology. 2014; 55 (1): e6-e6. doi:10.1093/pcp/pct178