Examination of the relationship between essential genes in PPI network and hub proteins in reverse nearest neighbor topology

by Ning, K., Ng, H.K., Srihari, S., Leong, H.W., Nesvizhskii, A.I.
Published 2013

Sparsely correlated hidden Markov models with application to genome-wide location studies

by Choi, H., Fermin, D., Nesvizhskii, A.I., Ghosh, D., Qin, Z.S.
Published 2014

MSblender: A probabilistic approach for integrating peptide identifications from multiple database search engines

by Kwon, T., Choi, H., Vogel, C., Nesvizhskii, A.I., Marcotte, E.M.
Published 2014

SAINT-MS1: Protein-protein interaction scoring using label-free intensity data in affinity purification-mass spectrometry experiments

by Choi, H., Glatter, T., Gstaiger, M., Nesvizhskii, A.I.
Published 2014

LuciPHOr: Algorithm for phosphorylation site localization with false localization rate estimation using modified target-decoy approach

by Fermin, D., Walmsley, S.J., Gingras, A.-C., Choi, H., Nesvizhskii, A.I.
Published 2014

SUMOylation pathway in Trypanosoma cruzi: Functional characterization and proteomic analysis of target proteins

by Bayona, J.C., Nakayasu, E.S., Laverrière, M., Aguilar, C., Sobreira, T.J.P., Choi, H., Nesvizhskii, A.I., Almeida, I.C., Cazzulo, J.J., Alvarez, V.E.
Published 2014

Analyzing protein-protein interactions from affinity purification-mass spectrometry data with SAINT

by Choi, H., Liu, G., Mellacheruvu, D., Tyers, M., Gingras, A.-C., Nesvizhskii, A.I.
Published 2014

Using ProHits to store, annotate, and analyze Affinity purification-mass spectrometry (AP-MS) Data

by Liu, G., Zhang, J., Choi, H., Lambert, J.-P., Srikumar, T., Larsen, B., Nesvizhskii, A.I., Raught, B., Tyers, M., Gingras, A.-C.
Published 2014

Metabolites of purine nucleoside Phosphorylase (NP) in serum have the potential to delineate Pancreatic Adenocarcinoma

by Vareed S.K., Bhat V.B., Thompson C., Vasu V.T., Fermin D., Choi H., Creighton C.J., Gayatri S., Lan L., Putluri N., Thangjam G.S., Kaur P., Shabahang M., Giri J.G., Nesvizhskii A.I., Asea A.A.A., Cashikar A.G., Rao A., McLoughlin J., Sreekumar A.
Published 2018

A chloroform-assisted protein isolation method followed by capillary NanoLC-MS identify estrogen-regulated proteins from MCF7 cells

by Vellaichamy, A, Lin, C.-Y, Aye, T.T, Kunde, G.R, Nesvizhskii, A.I, Liu, E.T, Sze, S.K
Published 2020

The CRAPome: A contaminant repository for affinity purification-mass spectrometry data

by Mellacheruvu, D., Wright, Z., Couzens, A.L., Lambert, J.-P., St-Denis, N.A., Li, T., Miteva, Y.V., Hauri, S., Sardiu, M.E., Low, T.Y., Halim, V.A., Bagshaw, R.D., Hubner, N.C., Al-Hakim, A., Bouchard, A., Faubert, D., Fermin, D., Dunham, W.H., Goudreault, M., Lin, Z.-Y., Badillo, B.G., Pawson, T., Durocher, D., Coulombe, B., Aebersold, R., Superti-Furga, G., Colinge, J., Heck, A.J.R., Choi, H., Gstaiger, M., Mohammed, S., Cristea, I.M., Bennett, K.L., Washburn, M.P., Raught, B., Ewing, R.M., Gingras, A.-C., Nesvizhskii, A.I.
Published 2014

The SysteMHC Atlas project

by Shao, W.G., Pedrioli, P.G.A., Wolski, W., Scurtescu, C., Schmid, E., Vizcaino, J.A., Courcelles, M., Schuster, H., Kowalewski, D., Marino, F., Arlehamn, C.S.L., Vaughan, K., Peters, B., Sette, A., Ottenhoff, T.H.M., Meijgaarden, K.E., Nieuwenhuizen, N., Kaufmann, S.H.E., Schlapbach, R., Castle, J.C., Nesvizhskii, A.I., Nielsen, M., Deutsch, E.W., Campbell, D.S., Moritz, R.L., Zubarev, R.A., Ytterberg, A.J., Purcell, A.W., Marcilla, M., Paradela, A., Wang, Q., Costello, C.E., Ternette, N., Veelen, P.A. van, Els, C.A.C.M. van, Heck, A.J.R., Souza, G.A. de, Sollid, L.M., Admon, A., Stevanovic, S., Rammensee, H.G., Thibault, P., Perreault, C., Bassani-Sternberg, M., Aebersold, R., Caron, E.
Published 2018