We study deep learning on health and medical data. Each variable in health and medical data has different characteristic, thus data standardization plays critical role for accuracy and efficiency of deep learning. We investigate data generation, data privacy protection, data standardization, deep learning, and data visualization, to achieve personalized preventive medicine based on precise predictions.

Main Research Field

Complex systems

Related Research Fields

Informatics / Biological Sciences / Biology / Medicine, dentistry, and pharmacy

Keywords

• Deep learning
• Systems biology
• Systems medicine

Selected Publications

Papers with an asterisk(*) are based on research conducted outside of RIKEN.

1. Koga T, Nonaka N, Sakuma J, Seita J.:
   "General-to-Detailed GAN for Infrequent Class Medical Images."
   Machine Learning for Health (ML4H) Workshop at NeurIPS 2018.
2. Rosental B, Kowarsky M, Seita J, Corey DM, Ishizuka KJ, Palmeri KJ, Chen SY, Sinha R, Okamoto J, Mantalas G, Manni L, Raveh T, Clarke DN, Tsai JM, Newman AM, Neff NF, Nolan GP, Quake SR, Weissman IL, Voskoboynik A.:
   "Complex mammalian-like haematopoietic system found in a colonial chordate."
   Nature. 2018 Dec 5.
3. Tsai JM, Sinha R, Seita J, Fernhoff N, Christ S, Koopmans T, Krampitz GW, McKenna KM, Xing L, Sandholzer M, Sales JH, Shoham M, McCracken M, Joubert LM, Gordon SR, Poux N, Wernig G, Norton JA, Weissman IL, Rinkevich Y.:
   "Surgical adhesions in mice are derived from mesothelial cells and can be targeted by antibodies against mesothelial markers."
   Sci Transl Med. 2018 Nov 28;10(469)
4. Chan C, Gulati G, Sinha R, Tompkins J, Lopez M, Carter A, Ransom R, Reinisch A, Wearda T, Murphy M, Brewer R, Koepke L, Marecic O, Manjunath A, Seo EY, Leavitt T, Lu WJ, Nguyen A, Conley S, Salhotra A, Ambrosi T, Borrelli M, Siebel T, Chan K, Schallmoser K, Seita J, Sahoo D, Goodnough H, Bishop J, Gardner M, Majeti R, Wan D, Goodman S, Weissman IL, Chang H, Longaker M.:
   "Identification of the Human Skeletal Stem Cell."
   Cell 2018 Sep 20; 175(1): 43-56.
5. *Seita J^*, Beerman I^*, Inlay M, Weissman IL, Rossi DJ.:
   “Quiescent hematopoietic stem cells accumulate DNA damage during aging that is repaired upon entry into cell cycle.”
   Cell Stem Cell 2014 Jul 3;15(1)
6. *Seita J, Sahoo D, Rossi DJ, Battacharya D, Serwold T, Inlay MA, Ehrlich LIR, Fathman JW, Dill DL, Weissman IL.:
   “Gene Expression Commons: an open platform for absolute gene expression profiling.”
   PLoS ONE 2012;7(7)
7. *Seita J^* , Ji H^*, Ehrlich LI^* (equal contribution), Murakami P, Doi A, Lindau P, Lee H, Aryee MJ, Irizarry RA, Kim K, Rossi DJ, Inlay MA, Serwold T, Karsunky H, Ho L, Daley GQ, Weissman IL, Feinberg AP.:
   “Comprehensive methylome map of lineage commitment from haematopoietic progenitors.”
   Nature. 2010 Sep 16;467(7313)
8. *Kim K, Doi A, Wen B, Ng K, Zhao R, Cahan P, Kim J, Aryee MJ, Ji H, Ehrlich LI, Yabuuchi A, Takeuchi A, Cunniff KC, Hongguang H, McKinney-Freeman S, Naveiras O, Yoon TJ, Irizarry RA, Jung N, Seita J, Hanna J, Murakami P, Jaenisch R, Weissleder R, Orkin SH, Weissman IL, Feinberg AP, Daley GQ.:
   “Epigenetic memory in induced pluripotent stem cells.”
   Nature. 2010 Sep 16:467(7313)
9. *Chen JY, Miyanishi M, Wang SK, Yamazaki S, Shinha R, Kao KS, Seita J, Sahoo D, Nakauchi H, Weissman IL.:
   “Hoxb5 marks long-term haematopoietic stem cells and reveals a homogenous perivascular niche.”
   Nature. 2016 Feb 11;530(7589)
10. *Chan CK, Seo EY, Chen JY, Lo D, McArdle A, Sinha R, Tevlin R, Seita J, Vincent-Tompkins J, Wearda T, Lu WJ, Senarath-Yapa K, Chung MT, Marecic O, Tran M, Yan KS, Upton R, Walmsley GG, Lee AS, Sahoo D, Kuo CJ, Weissman IL, Longaker MT.:
    “Identification and specification of the mouse skeletal stem cell.”
    Cell. 2015 Jan 15;160(1-2)