Tohoku University Tohoku Medical Megabank Organization (Yukuto Sato)
2019.09.20

1.   Ohta Tazro, Kawashima Takeshi, Shinozaki Natsuko O, et al. Collaborative environmental DNA sampling from petal surfaces of flowering cherry Cerasus × yedoensis 'Somei-yoshino' across the Japanese archipelago. Journal of plant research. 2018; 131 (4): 709-717. doi:10.1007/s10265-018-1017-x  
2.   Ohta Tazro, Kawashima Takeshi, Shinozaki Natsuko O, et al. Collaborative environmental DNA sampling from petal surfaces of flowering cherry Cerasus × yedoensis 'Somei-yoshino' across the Japanese archipelago. Journal of plant research. 2018; 131 (4): 709-717. doi:10.1007/s10265-018-1017-x  
3.   Nishioka Masaki, Bundo Miki, Ueda Junko, et al. Identification of somatic mutations in postmortem human brains by whole genome sequencing and their implications for psychiatric disorders. Psychiatry and Clinical Neurosciences. 2018; 72 (4): 280-294. doi:10.1111/pcn.12632  
4.   Nishioka Masaki, Bundo Miki, Ueda Junko, et al. Identification of somatic mutations in postmortem human brains by whole genome sequencing and their implications for psychiatric disorders. Psychiatry and clinical neurosciences. 2018; 72 (4): 280-294. doi:10.1111/pcn.12632  
5.   Pan Xiaoqing, Nariai Naoki, Fukuhara Noriko, et al. Monitoring of minimal residual disease in early T-cell precursor acute lymphoblastic leukaemia by next-generation sequencing. British Journal of Haematology. 2017; 176 (2): 318-321. doi:10.1111/bjh.13948  
6.   Kumagai Chihiro, Sato Yukuto, Yamashita Riu, et al. Semi-automated quantitative analysis of the human skin microbiome diversity. Journal of Dermatological Science. 2017; 86 (2): e75. doi:10.1016/j.jdermsci.2017.02.219  
7.   Ushio Masayuki, Fukuda Hisato, Inoue Toshiki, et al. Environmental DNA enables detection of terrestrial mammals from forest pond water. Molecular ecology resources. 2017; 17 (6): e63-e75. doi:10.1111/1755-0998.12690  
8.   Yamamoto Satoshi, Masuda Reiji, Sato Yukuto, et al. Environmental DNA metabarcoding reveals local fish communities in a species-rich coastal sea. Scientific Reports. 2017; 7 (1): 40368. doi:10.1038/srep40368  
9.   Yamagishi Junya, Sato Yukuto, Shinozaki Natsuko, et al. Comparison of Boiling and Robotics Automation Method in DNA Extraction for Metagenomic Sequencing of Human Oral Microbes. PLOS ONE. 2016; 11 (4): e0154389. doi:10.1371/journal.pone.0154389  
10.   Mimori Takahiro, Nariai Naoki, Kojima Kaname, et al. Estimating copy numbers of alleles from population-scale high-throughput sequencing data. BMC Bioinformatics. 2015; 16 ((Suppl 1):S4): . doi:10.1186/1471-2105-16-S1-S4  
11.   Nariai Naoki, Kojima Kaname, Saito Sakae, et al. HLA-VBSeq: accurate HLA typing at full resolution from whole-genome sequencing data. BMC Genomics. 2015; 16 ((Suppl 2):S7): . http://www.biomedcentral.com/qc/1471-2164/16/S2/S7  
12.   Yamaguchi-Kabata Yumi, Nariai Naoki, Kawai Yosuke, et al. iJGVD: an integrative Japanese genome variation database based on whole-genome sequencing. Human Genome Variation. 2015; 2 : 15050. doi:10.1038/hgv.2015.50  
13.   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 : 8018. doi:10.1038/ncomms9018  
14.   Sato Yukuto, Yamagishi Junya, Yamashita Riu, et al. Inter-Individual Differences in the Oral Bacteriome Are Greater than Intra-Day Fluctuations in Individuals. PLOS ONE. 2015; 10 (6): e0131607. doi:10.1371/journal.pone.0131607  
15.   Inoue Jun, Sato Yukuto, Sinclair Robert, et al. Rapid genome reshaping by multiple-gene loss after whole-genome duplication in teleost fish suggested by mathematical modeling. Proceedings of the National Academy of Sciences of the United States of America. 2015; 112 (48): 14918-23. doi:10.1073/pnas.1507669112  
16.   Miya M., Sato Y., Fukunaga T., et al. MiFish, a set of universal PCR primers for metabarcoding environmental DNA from fishes: detection of more than 230 subtropical marine species. Royal Society Open Science. 2015; 2 (7): 150088. doi:10.1098/rsos.150088  
17.   Sato Yukuto, Kojima Kaname, Nariai Naoki, et al. SUGAR: graphical user interface-based data refiner for high-throughput DNA sequencing. BMC genomics. 2014; 15 (1): 664. doi:10.1186/1471-2164-15-664  
18.   Nariai Naoki, Kojima Kaname, Mimori Takahiro, et al. TIGAR2: sensitive and accurate estimation of transcript isoform expression with longer RNA-Seq reads. BMC Genomics. 2014; 15 ((Suppl 10):S5): . doi:10.1186/1471-2164-15-S10-S5  
19.   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 : 673. doi:10.1186/1471-2164-15-673  
20.   Kojima Kaname, Nariai Naoki, Mimori Takahiro, et al. HapMonster: A Statistically Unified Approach for Variant Calling and Haplotyping Based on Phase-Informative Reads. Lecture Notes in Computer Science. 2014; 8542 : 107-118. doi:10.1007/978-3-319-07953-0_9  
21.   Ohtsuki Tomohiko, Nariai Naoki, Kojima Kaname, et al. SVEM: a Structural Variant Estimation Method using Multi-Mapped Reads on Breakpoints. Lecture Notes in Computer Science. 2014; 8542 : 208-219. doi:10.1007/978-3-319-07953-0_17  
22.   Kojima Kaname, Nariai Naoki, Mimori Takahiro, et al. A statistical variant calling approach from pedigree information and local haplotyping with phase informative reads. Bioinformatics. 2013; Nov 15 (29(22)): 2835-43. doi:10.1093/bioinformatics/btt503  
23.   Mimori Takahiro, Nariai Naoki, Kojima Kaname, et al. iSVP: an integrated structural variant calling pipeline from high-throughput sequencing data. BMC Syst Biol. 2013; 7 (Suppl 6): S8. doi:10.1186/1752-0509-7-S6-S8  
24.   Miya Masaki, Friedman Matt, Satoh Takashi P., et al. Evolutionary Origin of the Scombridae (Tunas and Mackerels): Members of a Paleogene Adaptive Radiation with 14 Other Pelagic Fish Families. PLoS ONE. 2013; 8 (9): e73535. doi:10.1371/journal.pone.0073535