1. |
|
Suzuki Nonoka, Kojima Kaname, Malvica Silvia, et al. Deep learning-based histopathological assessment of tubulo-interstitial injury in chronic kidney diseases. Communications Medicine. 2025; 5 (1): 3. doi:10.1038/s43856-024-00708-3 |
|
2. |
|
Ohneda Kinuko, Suzuki Yoichi, Hamanaka Yohei, et al. Returning genetic risk information for hereditary cancers to participants in a population-based cohort study in Japan. Journal of Human Genetics. 2025; 70 (3): 147-157. doi:10.1038/s10038-024-01314-w |
|
3. |
|
Narita Daisuke, Hishinuma Eiji, Ebina-Shibuya Risa, et al. Histological and genetic features and therapeutic responses of lung cancers explored via the global analysis of their metabolome profile. Lung Cancer. 2025; 200 : 108082. doi:10.1016/j.lungcan.2025.108082 |
|
4. |
|
Mori Naoko, Mugikura Shunji, Hozawa Atsushi, et al. Language Registration-Based Scoring System for Handwritten Logical Memory of Wechsler Memory Scale-Revised: Developed and Validated in the Tohoku Medical Megabank Project. The Tohoku Journal of Experimental Medicine. 2025; : 2025.J006. doi:10.1620/tjem.2025.J006 |
|
5. |
|
Yamazaki Shuki, Hishinuma Eiji, Suzuki Yuma, et al. Functional significance of CYP2B6 gene rare allelic variants identified in Japanese individuals. Biochemical Pharmacology. 2024; 229 : 116515. doi:10.1016/j.bcp.2024.116515 |
|
6. |
|
Omori Satoshi, Hanazono Yuya, Nishi Hafumi, Kinoshita Kengo. The role of the STAS domain in SLC26A9 for chloride ion transporter function. Biophysical Journal. 2024; 123 (12): 1751-1762. doi:10.1016/j.bpj.2024.05.018 |
|
7. |
|
Ikejiri Kazuaki, Suzuki Takafumi, Muto Satsuki, et al. Effects of NRF2 polymorphisms on safety and efficacy of bardoxolone methyl: subanalysis of TSUBAKI study. Clinical and Experimental Nephrology. 2024; 28 (3): 225-234. doi:10.1007/s10157-023-02427-w |
|
8. |
|
Suzuki Tomohisa, Ninomiya Kota, Funayama Takamitsu, et al. Next-generation sequencing analysis with a population-specific human reference genome. Genes & Genetic Systems. 2024; 99 : 24-00112. doi:10.1266/ggs.24-00112 |
|
9. |
|
Zhang Lin, Nishi Hafumi, Kinoshita Kengo. Multi-Omics Profiling Reveals Phenotypic and Functional Heterogeneity of Neutrophils in COVID-19. International Journal of Molecular Sciences. 2024; 25 (7): 3841. doi:10.3390/ijms25073841 |
|
10. |
|
Takase Masato, Nakaya Naoki, Nakamura Tomohiro, et al. Genetic Risk, Healthy Lifestyle Adherence, and Risk of Developing Diabetes in the Japanese Population. Journal of Atherosclerosis and Thrombosis. 2024; 31 (12): 64906. doi:10.5551/jat.64906 |
|
11. |
|
Hishida Asahi, Nakatochi Masahiro, Sutoh Yoichi, et al. GWAS Meta-analysis of Kidney Function Traits in Japanese Populations. Journal of Epidemiology. 2024; 34 (11): JE20230281. doi:10.2188/jea.JE20230281 |
|
12. |
|
Hozawa Atsushi, Nakaya Kumi, Nakaya Naoki, et al. Progress Report of the Tohoku Medical Megabank Community-based Cohort Study: Study Profile of the Repeated Center-based Survey During Second Period in Miyagi Prefecture. Journal of Epidemiology. 2024; 34 (9): JE20230241. doi:10.2188/jea.JE20230241 |
|
13. |
|
Harada Sei, Iida Miho, Miyagawa Naoko, et al. Study Profile of the Tsuruoka Metabolomics Cohort Study (TMCS). Journal of Epidemiology. 2024; 34 (8): JE20230192. doi:10.2188/jea.JE20230192 |
|
14. |
|
Kojima Kaname, Tadaka Shu, Okamura Yasunobu, Kinoshita Kengo. Two-stage strategy using denoising autoencoders for robust reference-free genotype imputation with missing input genotypes. Journal of Human Genetics. 2024; 69 (10): 511-518. doi:10.1038/s10038-024-01261-6 |
|
15. |
|
Sato Mitsuharu, Hishinuma Eiji, Matsukawa Naomi, et al. Dietary habits and plasma lipid concentrations in a general Japanese population. Metabolomics. 2024; 20 (2): 34. doi:10.1007/s11306-024-02087-1 |
|
16. |
|
Itoh Taito, Omori Yuko, Seino Mitsuru, et al. Gene Rearrangement and Expression of PRKACA and PRKACB Govern Morphobiology of Pancreatobiliary Oncocytic Neoplasms. Modern Pathology. 2024; 37 (1): 100358. doi:10.1016/j.modpat.2023.100358 |
|
17. |
|
Sekine Hiroki, Takeda Haruna, Takeda Norihiko, et al. PNPO–PLP axis senses prolonged hypoxia in macrophages by regulating lysosomal activity. Nature Metabolism. 2024; 6 (6): 1108-1127. doi:10.1038/s42255-024-01053-4 |
|
18. |
|
Tadaka Shu, Kawashima Junko, Hishinuma Eiji, et al. jMorp: Japanese Multi-Omics Reference Panel update report 2023. Nucleic Acids Research. 2024; 52 (D1): D622-D632. doi:10.1093/nar/gkad978 |
|
19. |
|
Miki Atsuya, Fuse Nobuo, Fujimoto Satoko, et al. Prevalence, Associated Factors, and Inter-Eye Differences of Refractive Errors in a Population-Based Japanese Cohort: The Tohoku Medical Megabank Eye Study. Ophthalmic Epidemiology. 2024; 31 (1): 46-54. doi:10.1080/09286586.2023.2203226 |
|
20. |
|
Zainab Afeefa, Anzawa Hayato, Kinoshita Kengo. Identifying key genes in COPD risk via multiple population data integration and gene prioritization. PLOS ONE. 2024; 19 (11): e0305803. doi:10.1371/journal.pone.0305803 |
|
21. |
|
Li Xue, Takahashi Nagahide, Narita Akira, et al. Identification of risk loci for postpartum depression in a genome‐wide association study. Psychiatry and Clinical Neurosciences. 2024; 78 (11): 712-720. doi:10.1111/pcn.13731 |
|
22. |
|
Takase Masato, Nakaya Naoki, Nakamura Tomohiro, et al. Genetic risk, lifestyle adherence, and risk of developing hyperuricaemia in a Japanese population. Rheumatology. 2024; : . doi:10.1093/rheumatology/keae492 |
|
23. |
|
Koyanagi Yuriko N., Nakatochi Masahiro, Namba Shinichi, et al. Genetic architecture of alcohol consumption identified by a genotype-stratified GWAS and impact on esophageal cancer risk in Japanese people. Science Advances. 2024; 10 (4): . doi:10.1126/sciadv.ade2780 |
|
24. |
|
Sato Shuichi, Imaeda Takao, Mugikura Shunji, et al. Association of olfactory and cognitive function test scores with hippocampal and amygdalar grey matter volume: a cross-sectional study. Scientific Reports. 2024; 14 (1): 19138. doi:10.1038/s41598-024-69726-4 |
|
25. |
|
Sakurai Miyuki, Motoike Ikuko N., Hishinuma Eiji, et al. Identifying critical age and gender-based metabolomic shifts in a Japanese population of the Tohoku Medical Megabank cohort. Scientific Reports. 2024; 14 (1): 15681. doi:10.1038/s41598-024-66180-0 |
|
26. |
|
Aoki Yu-ichi, Taguchi Keiko, Anzawa Hayato, et al. Whole blood transcriptome analysis for age- and gender-specific gene expression profiling in Japanese individuals. The Journal of Biochemistry. 2024; 175 (6): 611-627. doi:10.1093/jb/mvae008 |
|
27. |
|
Hanyuda Akiko, Goto Atsushi, Nakatochi Masahiro, et al. Association Between Glycemic Traits and Primary Open-Angle Glaucoma: A Mendelian Randomization Study in the Japanese Population. American Journal of Ophthalmology. 2023; 245 : 193-201. doi:10.1016/j.ajo.2022.09.004 |
|
28. |
|
Mizuno Satoshi, Nagaie Satoshi, Tamiya Gen, et al. Establishment of the early prediction models of low-birth-weight reveals influential genetic and environmental factors: a prospective cohort study. BMC Pregnancy and Childbirth. 2023; 23 (1): 628. doi:10.1186/s12884-023-05919-5 |
|
29. |
|
Hishinuma Eiji, Shimada Muneaki, Matsukawa Naomi, et al. Identification of predictive biomarkers for endometrial cancer diagnosis and treatment response monitoring using plasma metabolome profiling. Cancer & Metabolism. 2023; 11 (1): 16. doi:10.1186/s40170-023-00317-z |
|
30. |
|
Hirose Wataru, Horiuchi Makoto, Li Donghan, et al. Selective Elimination of NRF2-Activated Cells by Competition With Neighboring Cells in the Esophageal Epithelium. Cellular and Molecular Gastroenterology and Hepatology. 2023; 15 (1): 153-178. doi:10.1016/j.jcmgh.2022.09.004 |
|
31. |
|
Tatara Yota, Yamazaki Hiromi, Katsuoka Fumiki, et al. Multiomics and artificial intelligence enabled peripheral blood-based prediction of amnestic mild cognitive impairment. Current Research in Translational Medicine. 2023; 71 (1): 103367. doi:10.1016/j.retram.2022.103367 |
|
32. |
|
Hishinuma Eiji, Narita Yoko, Rico Evelyn Marie Gutiérrez, et al. Functional Characterization of 12 Dihydropyrimidinase Allelic Variants in Japanese Individuals for the Prediction of 5-Fluorouracil Treatment-Related Toxicity. Drug Metabolism and Disposition. 2023; 51 (2): 165-173. doi:10.1124/dmd.122.001045 |
|
33. |
|
Sato Yu, Hishinuma Eiji, Yamazaki Shuki, et al. Functional Characterization of 29 Cytochrome P450 4F2 Variants Identified in a Population of 8380 Japanese Subjects and Assessment of Arachidonic Acid ω -Hydroxylation. Drug Metabolism and Disposition. 2023; 51 (12): 1561-1568. doi:10.1124/dmd.123.001389 |
|
34. |
|
Sato Shiho, Yu Zhiqian, Sakai Mai, et al. Decreased β‐hydroxybutyrate and ketogenic amino acid levels in depressed human adults. European Journal of Neuroscience. 2023; 57 (6): 1018-1032. doi:10.1111/ejn.15931 |
|
35. |
|
Zhang Lin, Nishi Hafumi, Kinoshita Kengo. Single-cell RNA-seq public data reveal the gene regulatory network landscape of respiratory epithelial and peripheral immune cells in COVID-19 patients. Frontiers in Immunology. 2023; 14 : . doi:10.3389/fimmu.2023.1194614 |
|
36. |
|
Watarai Gosuke, Suzuki Jun, Motoike Ikuko N, et al. Relationship between age‐related hearing loss and consumption of coffee and tea. Geriatrics & Gerontology International. 2023; 23 (6): 453-456. doi:10.1111/ggi.14589 |
|
37. |
|
Ishikawa Tomohiko, Ogawa Takenori, Shiihara Masahiro, et al. Salivary gland cancer organoids are valid for preclinical genotype-oriented medical precision trials. iScience. 2023; 26 (5): 106695. doi:10.1016/j.isci.2023.106695 |
|
38. |
|
Taira Makiko, Mugikura Shunji, Mori Naoko, et al. Tohoku Medical Megabank Brain Magnetic Resonance Imaging Study: Rationale, Design, and Background. JMA Journal. 2023; 6 (3): 246-264. doi:10.31662/jmaj.2022-0220 |
|
39. |
|
Sato Shuichi, Imaeda Takao, Mugikura Shunji, et al. Association Between Olfactory Test Data with Multiple Levels of Odor Intensity and Suspected Cognitive Impairment: A Cross-Sectional Study. Journal of Alzheimer's Disease. 2023; 95 (4): 1469-1480. doi:10.3233/JAD-230318 |
|
40. |
|
Anzawa Hayato, Kinoshita Kengo. C4S DB: Comprehensive Collection and Comparison for ChIP-Seq Database. Journal of Molecular Biology. 2023; 435 (14): 168157. doi:10.1016/j.jmb.2023.168157 |
|
41. |
|
Hishinuma Eiji, Shimada Muneaki, Matsukawa Naomi, et al. Identification of predictive biomarkers for diagnosis and radiation sensitivity of uterine cervical cancer using wide‐targeted metabolomics. Journal of Obstetrics and Gynaecology Research. 2023; 49 (8): 2109-2117. doi:10.1111/jog.15709 |
|
42. |
|
Yu Zhiqian, Ueno Kazuko, Funayama Ryo, et al. Sex-Specific Differences in the Transcriptome of the Human Dorsolateral Prefrontal Cortex in Schizophrenia. Molecular Neurobiology. 2023; 60 (2): 1083-1098. doi:10.1007/s12035-022-03109-6 |
|
43. |
|
Bui Han Ba, Watanabe Satoshi, Nomura Norimichi, et al. Cryo-EM structures of human zinc transporter ZnT7 reveal the mechanism of Zn2+ uptake into the Golgi apparatus. Nature Communications. 2023; 14 (1): 4770. doi:10.1038/s41467-023-40521-5 |
|
44. |
|
Obayashi Takeshi, Kodate Shun, Hibara Himiko, et al. COXPRESdb v8: an animal gene coexpression database navigating from a global view to detailed investigations. Nucleic Acids Research. 2023; 51 (D1): D80-D87. doi:10.1093/nar/gkac983 |
|
45. |
|
Hanyuda Akiko, Goto Atsushi, Katagiri Ryoko, et al. Investigating the association between glycaemic traits and colorectal cancer in the Japanese population using Mendelian randomisation. Scientific Reports. 2023; 13 (1): 7052. doi:10.1038/s41598-023-33966-7 |
|
46. |
|
Shimokawa Kazuro. A knowledge representation model for family relationship to three generation. Bioinformation. 2022; 18 (12): 1166-1172. doi:10.6026/973206300181166 |
|
47. |
|
Nagai Masayoshi, Iemura Kenji, Kikkawa Takako, et al. Deficiency of CHAMP1 , a gene related to intellectual disability, causes impaired neuronal development and a mild behavioural phenotype. Brain Communications. 2022; 4 (5): . doi:10.1093/braincomms/fcac220 |
|
48. |
|
Iwagami Masao, Goto Atsushi, Katagiri Ryoko, et al. Blood Lipids and the Risk of Colorectal Cancer: Mendelian Randomization Analyses in the Japanese Consortium of Genetic Epidemiology Studies. Cancer Prevention Research. 2022; 15 (12): 827-836. doi:10.1158/1940-6207.CAPR-22-0146 |
|
49. |
|
Iemura Kenji, Anzawa Hayato, Funayama Ryo, et al. High levels of chromosomal instability facilitate the tumor growth and sphere formation. Cancer Science. 2022; 113 (8): 2727-2737. doi:10.1111/cas.15457 |
|
50. |
|
Otsuki Akihito, Okamura Yasunobu, Ishida Noriko, et al. Construction of a trio-based structural variation panel utilizing activated T lymphocytes and long-read sequencing technology. Communications Biology. 2022; 5 (1): 991. doi:10.1038/s42003-022-03953-1 |
|
51. |
|
Hishinuma Eiji, Narita Yoko, Obuchi Kai, et al. Importance of Rare DPYD Genetic Polymorphisms for 5-Fluorouracil Therapy in the Japanese Population. Frontiers in Pharmacology. 2022; 13 : . doi:10.3389/fphar.2022.930470 |
|
52. |
|
Shiga Naomi, Yamaguchi-Kabata Yumi, Igeta Saori, et al. Pathological variants in genes associated with disorders of sex development and central causes of hypogonadism in a whole-genome reference panel of 8380 Japanese individuals. Human Genome Variation. 2022; 9 (1): 34. doi:10.1038/s41439-022-00213-w |
|
53. |
|
Ohseto Hisashi, Ishikuro Mami, Obara Taku, et al. Preeclampsia prediction model using the dipstick test for proteinuria during early gestation. Hypertension Research in Pregnancy. 2022; 10 (3): HRP2022-002. doi:10.14390/jsshp.HRP2022-002 |
|
54. |
|
Yu Zhiqian, Matsukawa Naomi, Saigusa Daisuke, et al. Plasma metabolic disturbances during pregnancy and postpartum in women with depression. iScience. 2022; 25 (12): 105666. doi:10.1016/j.isci.2022.105666 |
|
55. |
|
Ohneda Kinuko, Hiratsuka Masahiro, Kawame Hiroshi, et al. A Pilot Study for Return of Individual Pharmacogenomic Results to Population-Based Cohort Study Participants. JMA Journal. 2022; 5 (2): . doi:10.31662/jmaj.2021-0156 |
|
56. |
|
Sugawara Junichi, Ishikuro Mami, Obara Taku, et al. Maternal Baseline Characteristics and Perinatal Outcomes: The Tohoku Medical Megabank Project Birth and Three-Generation Cohort Study. Journal of epidemiology. 2022; 32 (2): 69-79. doi:10.2188/jea.JE20200338 |
|
57. |
|
Goto Atsushi, Suzuki Shiori, Katagiri Ryoko, et al. Public Access to Summary Statistics for Genome-wide Association Studies of Body Mass Index, Weight, and Height Among Healthy Japanese Individuals: The Japanese Consortium of Genetic Epidemiology Studies. Journal of Epidemiology. 2022; 32 (2): JE20210459. doi:10.2188/jea.JE20210459 |
|
58. |
|
Kawame Hiroshi, Fukushima Akimune, Fuse Nobuo, et al. The return of individual genomic results to research participants: design and pilot study of Tohoku Medical Megabank Project. Journal of Human Genetics. 2022; 67 (1): 9-17. doi:10.1038/s10038-021-00952-8 |
|
59. |
|
Fuse Nobuo, Sakurai Miyuki, Motoike Ikuko N., et al. Genome-wide Association Study of Axial Length in Population-based Cohorts in Japan. Ophthalmology Science. 2022; 2 (1): 100113. doi:10.1016/j.xops.2022.100113 |
|
60. |
|
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 |
|
61. |
|
Okazaki Keito, Anzawa Hayato, Katsuoka Fumiki, et al. CEBPB is required for NRF2-mediated drug resistance in NRF2-activated non-small cell lung cancer cells. The Journal of Biochemistry. 2022; 171 (5): 567-578. doi:10.1093/jb/mvac013 |
|
62. |
|
Zempo Hirofumi, Kim Su-Jeong, Fuku Noriyuki, et al. A pro-diabetogenic mtDNA polymorphism in the mitochondrial-derived peptide, MOTS-c. Aging. 2021; 13 (2): 1692-1717. doi:10.18632/aging.202529 |
|
63. |
|
Uchida Yasuo, Higuchi Tomoya, Shirota Matsuyuki, et al. Identification and Validation of Combination Plasma Biomarker of Afamin, Fibronectin and Sex Hormone-Binding Globulin to Predict Pre-eclampsia. Biological and Pharmaceutical Bulletin. 2021; 44 (6): 804-815. doi:10.1248/bpb.b20-01043 |
|
64. |
|
Suzuki Shiori, Goto Atsushi, Nakatochi Masahiro, et al. Body mass index and colorectal cancer risk: A Mendelian randomization study. Cancer Science. 2021; 112 (4): 1579-1588. doi:10.1111/cas.14824 |
|
65. |
|
Omori Satoshi, Tsugita Misato, Hoshikawa Yasuto, et al. Tim4 recognizes carbon nanotubes and mediates phagocytosis leading to granuloma formation. Cell Reports. 2021; 34 (6): 108734. doi:10.1016/j.celrep.2021.108734 |
|
66. |
|
Yamada Mitsuhiro, Motoike Ikuko N., Kojima Kaname, et al. Genetic loci for lung function in Japanese adults with adjustment for exhaled nitric oxide levels as airway inflammation indicator. Communications Biology. 2021; 4 (1): 1288. doi:10.1038/s42003-021-02813-8 |
|
67. |
|
Kumondai Masaki, Gutiérrez Rico Evelyn Marie, Hishinuma Eiji, et al. Functional Characterization of 40 CYP3A4 Variants by Assessing Midazolam 1′-Hydroxylation and Testosterone 6 β -Hydroxylation. Drug Metabolism and Disposition. 2021; 49 (3): 212-220. doi:10.1124/dmd.120.000261 |
|
68. |
|
Shiihara Masahiro, Ishikawa Tomohiko, Saiki Yuriko, et al. Development of a system combining comprehensive genotyping and organoid cultures for identifying and testing genotype-oriented personalised medicine for pancreatobiliary cancers. European Journal of Cancer. 2021; 148 : 239-250. doi:10.1016/j.ejca.2021.01.047 |
|
69. |
|
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 |
|
70. |
|
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 |
|
71. |
|
Nagaoka Shinichi, Yamaguchi-Kabata Yumi, Shiga Naomi, et al. Estimation of the carrier frequencies and proportions of potential patients by detecting causative gene variants associated with autosomal recessive bone dysplasia using a whole-genome reference panel of Japanese individuals. Human Genome Variation. 2021; 8 (1): 2. doi:10.1038/s41439-020-00133-7 |
|
72. |
|
Hozawa Atsushi, Tanno Kozo, Nakaya Naoki, et al. Study profile of the tohoku medical megabank community-based cohort study. Journal of Epidemiology. 2021; 31 (1): 65-76. doi:10.2188/jea.JE20190271 |
|
73. |
|
Shido Kosuke, Kojima Kaname, Shirota Matsuyuki, et al. GWAS Identified IL4R and the Major Histocompatibility Complex Region as the Associated Loci of Total Serum IgE Levels in 9,260 Japanese Individuals. Journal of Investigative Dermatology. 2021; 141 (11): 2749-2752. doi:10.1016/j.jid.2021.02.762 |
|
74. |
|
Kumondai Masaki, Ito Akio, Gutiérrez Rico Evelyn Marie, et al. Functional Assessment of 12 Rare Allelic CYP2C9 Variants Identified in a Population of 4773 Japanese Individuals. Journal of Personalized Medicine. 2021; 11 (2): 94. doi:10.3390/jpm11020094 |
|
75. |
|
Kumondai Masaki, Gutiérrez Rico Evelyn, Hishinuma Eiji, et al. Functional Characterization of 21 Rare Allelic CYP1A2 Variants Identified in a Population of 4773 Japanese Individuals by Assessing Phenacetin O-Deethylation. Journal of Personalized Medicine. 2021; 11 (8): 690. doi:10.3390/jpm11080690 |
|
76. |
|
Saigusa Daisuke, Hishinuma Eiji, Matsukawa Naomi, et al. Comparison of Kit-Based Metabolomics with Other Methodologies in a Large Cohort, towards Establishing Reference Values. Metabolites. 2021; 11 (10): 652. doi:10.3390/metabo11100652 |
|
77. |
|
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): 1-18. doi:10.1128/MCB.00472-20 |
|
78. |
|
Takayama Jun, Tadaka Shu, Yano Kenji, et al. Construction and integration of three de novo Japanese human genome assemblies toward a population-specific reference. Nature Communications. 2021; 12 (1): 226. doi:10.1038/s41467-020-20146-8 |
|
79. |
|
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 |
|
80. |
|
Tokunaga Hideki, Iida Keita, Hozawa Atsushi, et al. Novel candidates of pathogenic variants of the BRCA1 and BRCA2 genes from a dataset of 3,552 Japanese whole genomes (3.5KJPNv2). PLOS ONE. 2021; 16 (1): e0236907. doi:10.1371/journal.pone.0236907 |
|
81. |
|
Kojima Kaname, Shido Kosuke, Tamiya Gen, et al. Facial UV photo imaging for skin pigmentation assessment using conditional generative adversarial networks. Scientific Reports. 2021; 11 (1): 1213. doi:10.1038/s41598-020-79995-4 |
|
82. |
|
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 |
|
83. |
|
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 |
|
84. |
|
Shigemizu Daichi, Mitsumori Risa, Akiyama Shintaro, et al. Ethnic and trans-ethnic genome-wide association studies identify new loci influencing Japanese Alzheimer’s disease risk. Translational Psychiatry. 2021; 11 (1): 151. doi:10.1038/s41398-021-01272-3 |
|
85. |
|
Anzawa Hayato, Yamagata Hitoshi, Kinoshita Kengo. Theoretical characterisation of strand cross-correlation in ChIP-seq. BMC Bioinformatics. 2020; 21 (1): 417. doi:10.1186/s12859-020-03729-6 |
|
86. |
|
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 |
|
87. |
|
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 |
|
88. |
|
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 |
|
89. |
|
Kuriyama Shinichi, Metoki Hirohito, Kikuya Masahiro, et al. Cohort Profile: Tohoku Medical Megabank Project Birth and Three-Generation Cohort Study (TMM BirThree Cohort Study): rationale, progress and perspective. International Journal of Epidemiology. 2020; 49 (1): 18-19m. doi:10.1093/ije/dyz169 |
|
90. |
|
Shirota Matsuyuki, Saigusa Daisuke, Yamashita Riu, et al. Longitudinal plasma amino acid profiling with maternal genomic background throughout human pregnancy. Medical Mass Spectrometry. 2020; 4 (1): 36-49. doi:10.24508/mms.2020.06.001 |
|
91. |
|
Kagaya Yuki, Minei Ryuhei, Duong Ha T T, et al. Metagenome Sequences from the Environment of Diseased Otter Clams, Lutraria rhynchaena, from a Farm in Vietnam. Microbiology Resource Announcements. 2020; 9 (2): . doi:10.1128/MRA.01068-19 |
|
92. |
|
Okazaki Keito, Anzawa Hayato, Liu Zun, et al. Enhancer remodeling promotes tumor-initiating activity in NRF2-activated non-small cell lung cancers. Nature Communications. 2020; 11 (1): 5911. doi:10.1038/s41467-020-19593-0 |
|
93. |
|
Lin Yingsong, Nakatochi Masahiro, Hosono Yasuyuki, et al. Genome-wide association meta-analysis identifies GP2 gene risk variants for pancreatic cancer. Nature Communications. 2020; 11 (1): 3175. doi:10.1038/s41467-020-16711-w |
|
94. |
|
Kojima Kaname, Tadaka Shu, Katsuoka Fumiki, et al. A genotype imputation method for de-identified haplotype reference information by using recurrent neural network. PLOS Computational Biology. 2020; 16 (10): e1008207. doi:10.1371/journal.pcbi.1008207 |
|
95. |
|
Wagata Maiko, Ishikuro Mami, Obara Taku, et al. Low birth weight and abnormal pre-pregnancy body mass index were at higher risk for hypertensive disorders of pregnancy. Pregnancy Hypertension. 2020; 22 : 119-125. doi:10.1016/j.preghy.2020.08.001 |
|
96. |
|
Amano Ryota, Karashima Akihiro, Motoike Ikuko, et al. Consistency index of daily activity pattern and its correlations with subjective ratings of QOL. Sleep and Biological Rhythms. 2020; 18 (4): 297-304. doi:10.1007/s41105-020-00271-z |
|
97. |
|
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 |
|
98. |
|
Takahashi Yuta, Ueki Masao, Yamada Makoto, et al. Improved metabolomic data-based prediction of depressive symptoms using nonlinear machine learning with feature selection. Translational Psychiatry. 2020; 10 (1): 157. doi:10.1038/s41398-020-0831-9 |
|
99. |
|
Takahashi Yuta, Ueki Masao, Tamiya Gen, et al. Machine learning for effectively avoiding overfitting is a crucial strategy for the genetic prediction of polygenic psychiatric phenotypes. Translational Psychiatry. 2020; 10 (1): 294. doi:10.1038/s41398-020-00957-5 |
|
100. |
|
Sugawara Junichi, Ochi Daisuke, Yamashita Riu, et al. Maternity Log study: a longitudinal lifelog monitoring and multiomics analysis for the early prediction of complicated pregnancy. BMJ Open. 2019; 9 (2): e025939. doi:10.1136/bmjopen-2018-025939 |
|
101. |
|
Mori Minako, Hira Asuka, Yoshida Kenichi, et al. Pathogenic mutations identified by a multimodality approach in 117 Japanese Fanconi anemia patients. Haematologica. 2019; 104 (10): 1962-1973. doi:10.3324/haematol.2018.207241 |
|
102. |
|
Yamaguchi-Kabata Yumi, Yasuda Jun, Uruno Akira, et al. Estimating carrier frequencies of newborn screening disorders using a whole-genome reference panel of 3552 Japanese individuals. Human Genetics. 2019; 138 (4): 389-409. doi:10.1007/s00439-019-01998-7 |
|
103. |
|
Tadaka Shu, Katsuoka Fumiki, Ueki Masao, et al. 3.5KJPNv2: an allele frequency panel of 3552 Japanese individuals including the X chromosome. Human Genome Variation. 2019; 6 (1): 28. doi:10.1038/s41439-019-0059-5 |
|
104. |
|
Nagasaki Masao, Kuroki Yoko, Shibata Tomoko F., et al. Construction of JRG (Japanese reference genome) with single-molecule real-time sequencing. Human Genome Variation. 2019; 6 (1): 27. doi:10.1038/s41439-019-0057-7 |
|
105. |
|
Sato Tomonori, Kawasaki Yoshihide, Maekawa Masamitsu, et al. Value of global metabolomics in association with diagnosis and clinicopathological factors of renal cell carcinoma. International Journal of Cancer. 2019; 145 (2): 484-493. doi:10.1002/ijc.32115 |
|
106. |
|
Sakurai Rieko, Ueki Masao, Makino Satoshi, et al. Outlier detection for questionnaire data in biobanks. International Journal of Epidemiology. 2019; 48 (4): 1305-1315. doi:10.1093/ije/dyz012 |
|
107. |
|
Fuse Nobuo, Sakurai-Yageta Mika, Katsuoka Fumiki, et al. Establishment of Integrated Biobank for Precision Medicine and Personalized Healthcare: The Tohoku Medical Megabank Project. JMA Journal. 2019; 2 (2): 113-122. doi:10.31662/jmaj.2019-0014 |
|
108. |
|
Kiniwa Yukiko, Yasuda Jun, Saito Sakae, et al. Identification of genetic alterations in extramammary Paget disease using whole exome analysis. Journal of Dermatological Science. 2019; 94 (1): 229-235. doi:10.1016/j.jdermsci.2019.03.006 |
|
109. |
|
Mizuguchi Takeshi, Suzuki Takeshi, Abe Chihiro, et al. A 12-kb structural variation in progressive myoclonic epilepsy was newly identified by long-read whole-genome sequencing. Journal of Human Genetics. 2019; 64 (5): 359-368. doi:10.1038/s10038-019-0569-5 |
|
110. |
|
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 |
|
111. |
|
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 |
|
112. |
|
Mimori Takahiro, Yasuda Jun, Kuroki Yoko, et al. Construction of full-length Japanese reference panel of class I HLA genes with single-molecule, real-time sequencing. The Pharmacogenomics Journal. 2019; 19 (2): 136-146. doi:10.1038/s41397-017-0010-4 |
|
113. |
|
Yamada Kazunori D., Kinoshita Kengo. De novo profile generation based on sequence context specificity with the long short-term memory network. BMC Bioinformatics. 2018; 19 (1): 272. doi:10.1186/s12859-018-2284-1 |
|
114. |
|
Okamura Yasunobu, Kinoshita Kengo. Matataki: an ultrafast mRNA quantification method for large-scale reanalysis of RNA-Seq data. BMC Bioinformatics. 2018; 19 (1): 266. doi:10.1186/s12859-018-2279-y |
|
115. |
|
Yasuda Jun, Katsuoka Fumiki, Danjoh Inaho, et al. Regional genetic differences among Japanese populations and performance of genotype imputation using whole-genome reference panel of the Tohoku Medical Megabank Project. BMC Genomics. 2018; 19 (1): 551. doi:10.1186/s12864-018-4942-0 |
|
116. |
|
Koshiba Seizo, Motoike Ikuko, Saigusa Daisuke, et al. Omics research project on prospective cohort studies from the Tohoku Medical Megabank Project. Genes to Cells. 2018; 23 (6): 406-417. doi:10.1111/gtc.12588 |
|
117. |
|
Yamaguchi-Kabata Yumi, Yasuda Jun, Tanabe Osamu, et al. Evaluation of reported pathogenic variants and their frequencies in a Japanese population based on a whole-genome reference panel of 2049 individuals. Journal of Human Genetics. 2018; 63 (2): 213-230. doi:10.1038/s10038-017-0347-1 |
|
118. |
|
Doi Kent, Nishida Osamu, Shigematsu Takashi, et al. The Japanese Clinical Practice Guideline for acute kidney injury 2016. Journal of Intensive Care. 2018; 6 (1): 48. doi:10.1186/s40560-018-0308-6 |
|
119. |
|
Kondo Hiroko X, Yoshida Norio, Shirota Matsuyuki, Kinoshita Kengo. Molecular Mechanism of Depolarization-Dependent Inactivation in W366F Mutant of Kv1.2. Journal of Physical Chemistry B. 2018; 122 (48): 10825-10833. doi:10.1021/acs.jpcb.8b09446 |
|
120. |
|
Iwaki Masayo, Takeshita Kohei, Kondo Hiroko X, et al. Zn2+-Binding to the Voltage-Gated Proton Channel Hv1/VSOP. Journal of Physical Chemistry B. 2018; 122 (39): 9076-9080. doi:10.1021/acs.jpcb.8b04890 |
|
121. |
|
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 |
|
122. |
|
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 |
|
123. |
|
Takai-Igarashi Takako, Kinoshita Kengo, Nagasaki Masao, et al. Security controls in an integrated Biobank to protect privacy in data sharing: rationale and study design. BMC Medical Informatics and Decision Making. 2017; 17 (1): 100. doi:10.1186/s12911-017-0494-5 |
|
124. |
|
Tsugita Misato, Morimoto Nobuyuki, Tashiro Manabu, et al. SR-B1 Is a Silica Receptor that Mediates Canonical Inflammasome Activation. Cell Reports. 2017; 18 (5): 1298-1311. doi:10.1016/j.celrep.2017.01.004 |
|
125. |
|
Matsuura Kentaro, Sawai Hiromi, Ikeo Kazuho, et al. Genome-Wide Association Study Identifies TLL1 Variant Associated With Development of Hepatocellular Carcinoma After Eradication of Hepatitis C Virus Infection. Gastroenterology. 2017; 152 (6): 1383-1394. doi:10.1053/j.gastro.2017.01.041 |
|
126. |
|
Hachiya Tsuyoshi, Furukawa Ryohei, Shiwa Yuh, et al. Genome-wide identification of inter-individually variable DNA methylation sites improves the efficacy of epigenetic association studies. npj Genomic Medicine. 2017; 2 (1): 11. doi:10.1038/s41525-017-0016-5 |
|
127. |
|
Tadaka Shu, Kinoshita Kengo. NCMine: Core-peripheral based functional module detection using near-clique mining. Bioinformatics. 2016; 32 (22): btw488. doi:10.1093/bioinformatics/btw488 |
|
128. |
|
Yamada Kazunori D, Nishi Hafumi, Nakata Junichi, Kinoshita Kengo. Structural characterization of single nucleotide variants at ligand binding sites and enzyme active sites of human proteins. Biophysics and Physicobiology. 2016; 13 : 157-163. doi:10.2142/biophysico.13.0_157 |
|
129. |
|
Shirota Matsuyuki, Kinoshita Kengo. Discrepancies between human DNA, mRNA and protein reference sequences and their relation to single nucleotide variants in the human population. Database. 2016; 2016 : baw124. doi:10.1093/database/baw124 |
|
130. |
|
Kuriyama Shinichi, Yaegashi Nobuo, Nagami Fuji, et al. The Tohoku Medical Megabank Project: Design and Mission. Journal of Epidemiology. 2016; 26 (9): 493-511. doi:10.2188/jea.JE20150268 |
|
131. |
|
Murakami Yoichi, Omori Satoshi, Kinoshita Kengo. NLDB: a database for 3D protein–ligand interactions in enzymatic reactions. Journal of Structural and Functional Genomics. 2016; 17 (4): 101-110. doi:10.1007/s10969-016-9206-0 |
|
132. |
|
Gojobori Takashi, Ikeo Kazuho, Katayama Yukie, et al. VaProS: a database-integration approach for protein/genome information retrieval. Journal of Structural and Functional Genomics. 2016; 17 (4): 69-81. doi:10.1007/s10969-016-9211-3 |
|
133. |
|
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 |
|
134. |
|
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 |
|
135. |
|
Saigusa Daisuke, Okamura Yasunobu, Motoike Ikuko N., et al. Establishment of Protocols for Global Metabolomics by LC-MS for Biomarker Discovery. PLOS ONE. 2016; 11 (8): e0160555. doi:10.1371/journal.pone.0160555 |
|
136. |
|
Kasahara Kota, Kinoshita Kengo. IBiSA_Tools: A Computational Toolkit for Ion-Binding State Analysis in Molecular Dynamics Trajectories of Ion Channels. PLOS ONE. 2016; 11 (12): e0167524. doi:10.1371/journal.pone.0167524 |
|
137. |
|
Kasahara Kota, Shirota Matsuyuki, Kinoshita Kengo. Ion Concentration- and Voltage-Dependent Push and Pull Mechanisms of Potassium Channel Ion Conduction. PLOS ONE. 2016; 11 (3): e0150716. doi:10.1371/journal.pone.0150716 |
|
138. |
|
Nishi Hafumi, Nakata Junichi, Kinoshita Kengo. Distribution of single‐nucleotide variants on protein–protein interaction sites and its relationship with minor allele frequency. Protein Science. 2016; 25 (2): 316-321. doi:10.1002/pro.2845 |
|
139. |
|
Kasahara Kota, Kinoshita Kengo. Landscape of protein-small ligand binding modes. Protein Science. 2016; 25 (9): 1659-1671. doi:10.1002/pro.2971 |
|
140. |
|
Fujiwara Yuichiro, Kondo Hiroko X., Shirota Matsuyuki, et al. Structural basis for the membrane association of ankyrinG via palmitoylation. Scientific Reports. 2016; 6 (1): 23981. doi:10.1038/srep23981 |
|
141. |
|
Koshiba Seizo, Motoike Ikuko, Kojima Kaname, et al. The structural origin of metabolic quantitative diversity. Scientific Reports. 2016; 6 (1): 31463. doi:10.1038/srep31463 |
|
142. |
|
Nagasaki Masao, Yasuda Jun, Katsuoka Fumiki, et al. Rare variant discovery by deep whole-genome sequencing of 1,070 Japanese individuals. Nature Communications. 2015; 6 (1): 8018. doi:10.1038/ncomms9018 |
|
143. |
|
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 |
|
144. |
|
Okamura Yasunobu, Obayashi Takeshi, Kinoshita Kengo. Comparison of Gene Coexpression Profiles and Construction of Conserved Gene Networks to Find Functional Modules. PLOS ONE. 2015; 10 (7): e0132039. doi:10.1371/journal.pone.0132039 |
|
145. |
|
Kasahara Kota, Kinoshita Kengo. GIANT: pattern analysis of molecular interactions in 3D structures of protein–small ligand complexes. BMC Bioinformatics. 2014; 15 (1): 12. doi:10.1186/1471-2105-15-12 |
|
146. |
|
Motoike Ikuko N, Matsumoto Mitsuyo, Danjoh Inaho, et al. 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. BMC Genomics. 2014; 15 (1): 673. doi:10.1186/1471-2164-15-673 |
|
147. |
|
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 |
|
148. |
|
Kasahara Kota, Shirota Matsuyuki, Kinoshita Kengo. Comprehensive classification and diversity assessment of atomic contacts in protein-small ligand interactions. Journal of Chemical Information and Modeling. 2013; 53 (1): 241-248. doi:10.1021/ci300377f |
|
149. |
|
Kasahara Kota, Shirota Matsuyuki, Kinoshita Kengo. Ion Concentration-Dependent Ion Conduction Mechanism of a Voltage-Sensitive Potassium Channel. PLoS ONE. 2013; 8 (2): e56342. doi:10.1371/journal.pone.0056342 |
|
150. |
|
Shirota Matsuyuki, Kinoshita Kengo. Analyses of the general rule on residue pair frequencies in local amino acid sequences of soluble, ordered proteins. Protein Science. 2013; 22 (6): 725-733. doi:10.1002/pro.2255 |
|
151. |
|
布施 昇男、清水 愛、木村 雅恵、高野 良真、石 棟、宮澤 晃子、国松 志保、劉 孟林、渡邊 亮、安田 正幸、横山 悠、檜森 紀子、津田 聡、山本 耕太郎、中澤 徹、安田 純、勝岡 史城、小島 要、成相 直樹、松本 光代、元池 育子、長崎 正朗、木下 賢吾、五十嵐 和彦、山本 雅之、新堀 哲也、青木 洋子、松原 洋一、舟山 亮、長嶋 剛史、中山 啓子、眞島 行彦、舟山 智代、田中 光一、原田 高幸、阿部 春樹、福地 健郎、安田 典子、出田 秀尚、鄭 暁東、白石 敦、大橋 祐一、石田 誠夫、原 岳、金森 章. 緑内障のゲノム解析―次世代医療•個別化医療に向けて. 日本眼科学会雑誌. 2013; 118 ((3)): 216-240. |
|
152. |
|
Obayashi Takeshi, Okamura Yasunobu, Ito Satoshi, et al. COXPRESdb: a database of comparative gene coexpression networks of eleven species for mammals. Nucleic Acids Research. 2012; 41 (D1): D1014-D1020. doi:10.1093/nar/gks1014 |
|