Yo Akiyama

Yo Akiyama

MIT EECS PhD student

Publications

(†=co-first author; *=co-corresponding author)

Pan-cancer analysis of post-translational modifications reveals shared patterns of protein regulation

Published in Cell, 2023

Geffen, Y.†, Anand, S.†, Akiyama, Y.†, Yaron, T.M.†, Song, Y.†, Johnson, J.L., Govindan, A., Babur, Ö., Li, Y., Huntsman, E., Wang, L., Birger, C., Heiman, D.I., Zhang, Q., Miller, M., Maruvka, Y.E., Haradhvala, N.J., Calinawan, A., Belkin, S., Kerelsky, A., Clauser, K.R., Krug, K., Satpathy, S., Payne, S.H., Mani, D., Gillette, M.A., Dhanasekaran, S.M., Thiagarajan, M., Mesri, M., Rodriguez, H., Robles, A.I., Carr, S.A., Lazar, A.J., Aguet, F.*, Cantley, L.C.*, Ding, L.*, Getz, G.*

Pan-cancer proteogenomics connects oncogenic drivers to functional states

Published in Cell, 2023

Li, Y.†, Porta-Pardo, E.†, Tokheim, C.†, Bailey, M.H.†, Yaron, T.M.†, Stathias, V., Geffen, Y., Imbach, K.J., Cao, S., Anand, S., Akiyama, Y., Liu, W., Wyczalkowski, M.A., Song, Y., Storrs, E.P., Wendl, M.C., Zhang, W., Sibai, M., Ruiz-Serra, V., Liang, W., Terekhanova, N.V., Rodrigues, F.M., Clauser, K.R., Heiman, D.I., Zhang, Q., Aguet, F., Calinawan, A.P., Dhanasekaran, S.M., Birger, C., Satpathy, S., Zhou, D.C., Wang, L., Baral, J., Johnson, J.L., Huntsman, E.M., Pugliese, P., Colaprico, A., Iavarone, A., Chheda, M.G., Ricketts, C.J., Fenyö, D., Payne, S.H., Rodriguez, H., Robles, A.I., Gillette, M.A., Kumar-Sinha, C., Lazar, A.J., Cantley, L.C.*, Getz, G.*, Ding, L.*

Proteogenomic data and resources for pan-cancer analysis

Published in Cancer Cell, 2023

Li, Y.†, Dou, Y.†, Leprevost, F.V.†, Geffen, Y.†, Calinawan, A.P.†, Aguet, F., Akiyama, Y., Anand, S., Birger, C., Cao, S., Chaudhary, R., Chilappagari, P., Cieslik, M., Colaprico, A., Zhou, D.C., Day, C., Domagalski, M.J., Selvan, M.E., Fenyö, D., Foltz, S.M., Francis, A., Gonzalez-Robles, T., Gümüş, Z.H., Heiman, D., Holck, M., Hong, R., Hu, Y., Jaehnig, E.J., Ji, J., Jiang, W., Katsnelson, L., Ketchum, K.A., Klein, R.J., Lei, J.T., Liang, W., Liao, Y., Lindgren, C.M., Ma, W., Ma, L., MacCoss, M.J., Rodrigues, F.M., McKerrow, W., Nguyen, N., Oldroyd, R., Pilozzi, A., Pugliese, P., Reva, B., Rudnick, P., Ruggles, K.V., Rykunov, D., Savage, S.R., Schnaubelt, M., Schraink, T., Shi, Z., Singhal, D., Song, X., Storrs, E., Terekhanova, N.V., Thangudu, R.R., Thiagarajan, M., Wang, L., Wang, J.M., Wang, Y., Wen, B., Wu, Y., Wyczalkowski, M.A., Xin, Y., Yao, L., Yi, X., Zhang, H., Zhang, Q., Zuhl, M., Getz, G., Ding, L., Nesvizhskii, A.I., Wang, P., Robles, A.I.*, Zhang, B.*, Payne, S.H.*

Genomic and transcriptomic analysis of checkpoint blockade response in advanced non-small cell lung cancer

Published in Nature Genetics, 2023

A. Ravi†, M.D. Hellmann†, M.B. Arniella†, M. Holton, S.S. Freeman, V. Naranbhai, C. Stewart, I. Leshchiner, J. Kim, Y. Akiyama, A.T. Griffin, N.I. Vokes, M.Sakhi, V.Kamesan, H.Rizvi, B.Ricciuti, P.M. Forde, V.Anagnostou, J.W. Riess, D.L. Gibbons, N.A. Pennell, V.Velcheti, S.R. Digumarthy, M. Mino-Kenudson, A. Califano, J.V. Heymach, R.S. Herbst, J.R. Brahmer, K.A. Schalper, V.E. Velculescu, B.S. Henick, N. Rizvi, P.A. Jänne, M.M. Awad, A. Chow, B.D. Greenbaum, M. Luksza, A.T. Shaw, J. Wolchok, N. Hacohen*, G. Getz*, J.F. Gainor*