Community evaluation of glycoproteomics informatics solutions reveals high-performance search strategies for serum glycopeptide analysis

Autor: Robert J. Chalkley, Kai Hooi Khoo, Daniel Kolarich, Erdmann Rapp, Yong Zhang, Hung Yi Wu, Miloslav Sanda, Jonas Nilsson, Enes Sakalli, Gun Wook Park, Doron Kletter, Kathirvel Alagesan, Katalin F. Medzihradszky, Rebeca Kawahara, Nathan Edwards, Radoslav Goldman, Nicolle H. Packer, Yehia Mechref, Wantao Ying, Joseph Zaia, Sriram Neelamegham, Bo Meng, Sergey Y. Vakhrushev, Benjamin L. Schulz, Markus Pioch, Benoit Liquet, Jin Young Kim, Johannes Stadlmann, Benjamin L. Parker, Terry Nguyen-Khuong, Jong Shin Yoo, Adam Pap, Nichollas E. Scott, Mingqi Liu, Marcus Hoffmann, Morten Thaysen-Andersen, Jingfu Zhao, Yingwei Hu, Göran Larson, Matthew S F Choo, Pengyuan Yang, Josef M. Penninger, Marshall Bern, Christina M. Woo, Weiqian Cao, Toan K. Phung, Giuseppe Palmisano, Kai Cheng, Anastasia Chernykh, Stuart M. Haslam, Yifan Huang, Hui Zhang, Cassandra L. Pegg, Georgy Sofronov

Publikováno v: Nature Methods
Repositório Institucional da USP (Biblioteca Digital da Produção Intelectual)
Universidade de São Paulo (USP)
instacron:USP
Nature methods, vol 18, iss 11
Kawahara, R, Chernykh, A, Alagesan, K, Bern, M, Cao, W, Chalkley, R J, Cheng, K, Choo, M S, Edwards, N, Goldman, R, Hoffmann, M, Hu, Y, Huang, Y, Kim, J Y, Kletter, D, Liquet, B, Liu, M, Mechref, Y, Meng, B, Neelamegham, S, Nguyen-Khuong, T, Nilsson, J, Pap, A, Park, G W, Parker, B L, Pegg, C L, Penninger, J M, Phung, T K, Pioch, M, Rapp, E, Sakalli, E, Sanda, M, Schulz, B L, Scott, N E, Sofronov, G, Stadlmann, J, Vakhrushev, S Y, Woo, C M, Wu, H Y, Yang, P, Ying, W, Zhang, H, Zhang, Y, Zhao, J, Zaia, J, Haslam, S M, Palmisano, G, Yoo, J S, Larson, G, Khoo, K H, Medzihradszky, K F, Kolarich, D, Packer, N H & Thaysen-Andersen, M 2021, ' Community evaluation of glycoproteomics informatics solutions reveals high-performance search strategies for serum glycopeptide analysis ', Nature Methods, vol. 18, no. 11, pp. 1304-1316 . https://doi.org/10.1038/s41592-021-01309-x

Glycoproteomics is a powerful yet analytically challenging research tool. Software packages aiding the interpretation of complex glycopeptide tandem mass spectra have appeared, but their relative performance remains untested. Conducted through the HU

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::6fd1540e30b1ed9db633b6604fd71731
https://doi.org/10.1038/s41592-021-01309-x

Author Correction: Community evaluation of glycoproteomics informatics solutions reveals high-performance search strategies for serum glycopeptide analysis

Autor: Rebeca Kawahara, Anastasia Chernykh, Kathirvel Alagesan, Marshall Bern, Weiqian Cao, Robert J. Chalkley, Kai Cheng, Matthew S. Choo, Nathan Edwards, Radoslav Goldman, Marcus Hoffmann, Yingwei Hu, Yifan Huang, Jin Young Kim, Doron Kletter, Benoit Liquet, Mingqi Liu, Yehia Mechref, Bo Meng, Sriram Neelamegham, Terry Nguyen-Khuong, Jonas Nilsson, Adam Pap, Gun Wook Park, Benjamin L. Parker, Cassandra L. Pegg, Josef M. Penninger, Toan K. Phung, Markus Pioch, Erdmann Rapp, Enes Sakalli, Miloslav Sanda, Benjamin L. Schulz, Nichollas E. Scott, Georgy Sofronov, Johannes Stadlmann, Sergey Y. Vakhrushev, Christina M. Woo, Hung-Yi Wu, Pengyuan Yang, Wantao Ying, Hui Zhang, Yong Zhang, Jingfu Zhao, Joseph Zaia, Stuart M. Haslam, Giuseppe Palmisano, Jong Shin Yoo, Göran Larson, Kai-Hooi Khoo, Katalin F. Medzihradszky, Daniel Kolarich, Nicolle H. Packer, Morten Thaysen-Andersen

Publikováno v: Repositório Institucional da USP (Biblioteca Digital da Produção Intelectual)
Universidade de São Paulo (USP)
instacron:USP
Nature Methods

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::528b2e37d527a1707daee863c55e1de7
https://doi.org/10.1038/s41592-021-01368-0

Core3 O-glycan synthase suppresses tumor formation and metastasis of prostate carcinoma PC3 and LNCaP cells through down-regulation of alpha2beta1 integrin complex

Autor: Shingo Hatakeyama, Xingfeng Bao, Chikara Ohyama, Kai-Hooi Khoo, Shin-Yi Yu, Michiko N. Fukuda, Minoru Fukuda, Seung Ho Lee

Publikováno v: The Journal of biological chemistry. 284(25)

Although there are numerous reports of carbohydrates enriched in cancer cells, very few studies have addressed the functions of carbohydrates present in normal cells that decrease in cancer cells. It has been reported that core3 O-glycans are synthes

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::1cadd34ecf23b88d181d293b4a222b85
https://pubmed.ncbi.nlm.nih.gov/19395705

Core3 O-Glycan Synthase Suppresses Tumor Formation and Metastasis of Prostate Carcinoma PC3 and LNCaP Cells through Down-regulation of α2β1 Integrin Complex.

Autor: Seung Ho Lee¹, Hatakeyama, Shingo¹, Shin-Yi Yu², Xingfeng Bao¹, Ohyama, Chikara³, Kai-Hooi Khoo², Fukuda, Michiko N.¹, Fukuda, Minoru¹ minoru@burnham.org

Publikováno v: Journal of Biological Chemistry. 6/19/2009, Vol. 284 Issue 25, p17157-17169. 13p. 9 Graphs.