Extracellular matrix signatures of human mammary carcinoma identify novel metastasis promoters

by Alexandra Naba, Karl R Clauser, John M Lamar, Steven A Carr, Richard O Hynes
Published 2014-03-01

Suppression of pancreatic ductal adenocarcinoma growth and metastasis by fibrillar collagens produced selectively by tumor cells

by Chenxi Tian, Ying Huang, Karl R. Clauser, Steffen Rickelt, Allison N. Lau, Steven A. Carr, Matthew G. Vander Heiden, Richard O. Hynes
Published 2021-04-01

Site-specific identification and quantitation of endogenous SUMO modifications under native conditions

by Ryan J. Lumpkin, Hongbo Gu, Yiying Zhu, Marilyn Leonard, Alla S. Ahmad, Karl R. Clauser, Jesse G. Meyer, Eric J. Bennett, Elizabeth A. Komives
Published 2017-10-01

1040-B Identifying tumor-associated antigens in different stages of multiple myeloma using low input HLA immunopeptidomics

by Elisabet Manasanch, Hannah Taylor, Gabrielle M Hernandez, Eva K Verzani, Claudia Ctortecka, David A Berrios Nolasco, Karl R Clauser, Namrata D Udeshi, Jennifer G Abelin, Steven A Carr
Published 2023-11-01

Plk1 self-organization and priming phosphorylation of HsCYK-4 at the spindle midzone regulate the onset of division in human cells.

by Mark E Burkard, John Maciejowski, Verónica Rodriguez-Bravo, Michael Repka, Drew M Lowery, Karl R Clauser, Chao Zhang, Kevan M Shokat, Steven A Carr, Michael B Yaffe, Prasad V Jallepalli
Published 2009-05-01

Cdk5 is required for memory function and hippocampal plasticity via the cAMP signaling pathway.

by Ji-Song Guan, Susan C Su, Jun Gao, Nadine Joseph, Zhigang Xie, Ying Zhou, Omer Durak, Lei Zhang, J Julius Zhu, Karl R Clauser, Steven A Carr, Li-Huei Tsai
Published 2011-01-01

Glyco-centric lectin magnetic bead array (LeMBA) − proteomics dataset of human serum samples from healthy, Barrett׳s esophagus and esophageal adenocarcinoma individuals

by Alok K. Shah, Kim-Anh Lê Cao, Eunju Choi, David Chen, Benoît Gautier, Derek Nancarrow, David C. Whiteman, Peter R. Baker, Karl R. Clauser, Robert J. Chalkley, Nicholas A. Saunders, Andrew P. Barbour, Virendra Joshi, Michelle M. Hill
Published 2016-06-01

The HLA-II immunopeptidome of SARS-CoV-2

by Shira Weingarten-Gabbay, Da-Yuan Chen, Siranush Sarkizova, Hannah B. Taylor, Matteo Gentili, Gabrielle M. Hernandez, Leah R. Pearlman, Matthew R. Bauer, Charles M. Rice, Karl R. Clauser, Nir Hacohen, Steven A. Carr, Jennifer G. Abelin, Mohsan Saeed, Pardis C. Sabeti
Published 2024-01-01

Deep learning boosts sensitivity of mass spectrometry-based immunopeptidomics

by Mathias Wilhelm, Daniel P. Zolg, Michael Graber, Siegfried Gessulat, Tobias Schmidt, Karsten Schnatbaum, Celina Schwencke-Westphal, Philipp Seifert, Niklas de Andrade Krätzig, Johannes Zerweck, Tobias Knaute, Eva Bräunlein, Patroklos Samaras, Ludwig Lautenbacher, Susan Klaeger, Holger Wenschuh, Roland Rad, Bernard Delanghe, Andreas Huhmer, Steven A. Carr, Karl R. Clauser, Angela M. Krackhardt, Ulf Reimer, Bernhard Kuster
Published 2021-06-01

Author Correction: Deep learning boosts sensitivity of mass spectrometry-based immunopeptidomics

by Mathias Wilhelm, Daniel P. Zolg, Michael Graber, Siegfried Gessulat, Tobias Schmidt, Karsten Schnatbaum, Celina Schwencke-Westphal, Philipp Seifert, Niklas de Andrade Krätzig, Johannes Zerweck, Tobias Knaute, Eva Bräunlein, Patroklos Samaras, Ludwig Lautenbacher, Susan Klaeger, Holger Wenschuh, Roland Rad, Bernard Delanghe, Andreas Huhmer, Steven A. Carr, Karl R. Clauser, Angela M. Krackhardt, Ulf Reimer, Bernhard Kuster
Published 2021-06-01

Workflow enabling deepscale immunopeptidome, proteome, ubiquitylome, phosphoproteome, and acetylome analyses of sample-limited tissues

by Jennifer G. Abelin, Erik J. Bergstrom, Keith D. Rivera, Hannah B. Taylor, Susan Klaeger, Charles Xu, Eva K. Verzani, C. Jackson White, Hilina B. Woldemichael, Maya Virshup, Meagan E. Olive, Myranda Maynard, Stephanie A. Vartany, Joseph D. Allen, Kshiti Phulphagar, M. Harry Kane, Suzanna Rachimi, D. R. Mani, Michael A. Gillette, Shankha Satpathy, Karl R. Clauser, Namrata D. Udeshi, Steven A. Carr
Published 2023-04-01

Microscaled proteogenomic methods for precision oncology

by Shankha Satpathy, Eric J. Jaehnig, Karsten Krug, Beom-Jun Kim, Alexander B. Saltzman, Doug W. Chan, Kimberly R. Holloway, Meenakshi Anurag, Chen Huang, Purba Singh, Ari Gao, Noel Namai, Yongchao Dou, Bo Wen, Suhas V. Vasaikar, David Mutch, Mark A. Watson, Cynthia Ma, Foluso O. Ademuyiwa, Mothaffar F. Rimawi, Rachel Schiff, Jeremy Hoog, Samuel Jacobs, Anna Malovannaya, Terry Hyslop, Karl R. Clauser, D. R. Mani, Charles M. Perou, George Miles, Bing Zhang, Michael A. Gillette, Steven A. Carr, Matthew J. Ellis
Published 2020-01-01

Proteogenomic integration reveals therapeutic targets in breast cancer xenografts

by Kuan-lin Huang, Shunqiang Li, Philipp Mertins, Song Cao, Harsha P. Gunawardena, Kelly V. Ruggles, D. R. Mani, Karl R. Clauser, Maki Tanioka, Jerry Usary, Shyam M. Kavuri, Ling Xie, Christopher Yoon, Jana W Qiao, John Wrobel, Matthew A. Wyczalkowski, Petra Erdmann-Gilmore, Jacqueline E. Snider, Jeremy Hoog, Purba Singh, Beifang Niu, Zhanfang Guo, Sam Qiancheng Sun, Souzan Sanati, Emily Kawaler, Xuya Wang, Adam Scott, Kai Ye, Michael D. McLellan, Michael C. Wendl, Anna Malovannaya, Jason M. Held, Michael A. Gillette, David Fenyö, Christopher R. Kinsinger, Mehdi Mesri, Henry Rodriguez, Sherri R. Davies, Charles M. Perou, Cynthia Ma, R. Reid Townsend, Xian Chen, Steven A. Carr, Matthew J. Ellis, Li Ding
Published 2017-03-01

Correction: Corrigendum: Proteogenomic integration reveals therapeutic targets in breast cancer xenografts

by Kuan-lin Huang, Shunqiang Li, Philipp Mertins, Song Cao, Harsha P. Gunawardena, Kelly V. Ruggles, D. R. Mani, Karl R. Clauser, Maki Tanioka, Jerry Usary, Shyam M. Kavuri, Ling Xie, Christopher Yoon, Jana W. Qiao, John Wrobel, Matthew A. Wyczalkowski, Petra Erdmann-Gilmore, Jacqueline E. Snider, Jeremy Hoog, Purba Singh, Beifang Niu, Zhanfang Guo, Sam Qiancheng Sun, Souzan Sanati, Emily Kawaler, Xuya Wang, Adam Scott, Kai Ye, Michael D. McLellan, Michael C. Wendl, Anna Malovannaya, Jason M. Held, Michael A. Gillette, David Fenyö, Christopher R. Kinsinger, Mehdi Mesri, Henry Rodriguez, Sherri R. Davies, Charles M. Perou, Cynthia Ma, R. Reid Townsend, Xian Chen, Steven A. Carr, Matthew J. Ellis, Li Ding
Published 2017-04-01

Reversal of viral and epigenetic HLA class I repression in Merkel cell carcinoma

by Patrick C. Lee, Susan Klaeger, Phuong M. Le, Keegan Korthauer, Jingwei Cheng, Varsha Ananthapadmanabhan, Thomas C. Frost, Jonathan D. Stevens, Alan Y.L. Wong, J. Bryan Iorgulescu, Anna Y. Tarren, Vipheaviny A. Chea, Isabel P. Carulli, Camilla K. Lemvigh, Christina B. Pedersen, Ashley K. Gartin, Siranush Sarkizova, Kyle T. Wright, Letitia W. Li, Jason Nomburg, Shuqiang Li, Teddy Huang, Xiaoxi Liu, Lucas Pomerance, Laura M. Doherty, Annie M. Apffel, Luke J. Wallace, Suzanna Rachimi, Kristen D. Felt, Jacquelyn O. Wolff, Elizabeth Witten, Wandi Zhang, Donna Neuberg, William J. Lane, Guanglan Zhang, Lars R. Olsen, Manisha Thakuria, Scott J. Rodig, Karl R. Clauser, Gabriel J. Starrett, John G. Doench, Sara J. Buhrlage, Steven A. Carr, James A. DeCaprio, Catherine J. Wu, Derin B. Keskin
Published 2022-07-01

Integrated Proteomic and Glycoproteomic Characterization of Human High-Grade Serous Ovarian Carcinoma

by Yingwei Hu, Jianbo Pan, Punit Shah, Minghui Ao, Stefani N. Thomas, Yang Liu, Lijun Chen, Michael Schnaubelt, David J. Clark, Henry Rodriguez, Emily S. Boja, Tara Hiltke, Christopher R. Kinsinger, Karin D. Rodland, Qing Kay Li, Jiang Qian, Zhen Zhang, Daniel W. Chan, Hui Zhang, Akhilesh Pandey, Amanda Paulovich, Andrew Hoofnagle, Bing Zhang, D.R. Mani, Daniel C. Liebler, David F. Ransohoff, David Fenyo, David L. Tabb, Douglas A. Levine, Eric Kuhn, Forest M. White, Gordon A. Whiteley, Heng Zhu, Ie-Ming Shih, Jasmin Bavarva, Jason E. McDermott, Jeffrey Whiteaker, Karen A. Ketchum, Karl R. Clauser, Kelly Ruggles, Kimberly Elburn, Li Ding, Linda Hannick, Lisa J. Zimmerman, Mark Watson, Mathangi Thiagarajan, Matthew J.C. Ellis, Mauricio Oberti, Mehdi Mesri, Melinda E. Sanders, Melissa Borucki, Michael A. Gillette, Michael Snyder, Nathan J. Edwards, Negin Vatanian, Paul A. Rudnick, Peter B. McGarvey, Philip Mertins, R. Reid Townsend, Ratna R. Thangudu, Richard D. Smith, Robert C. Rivers, Robert J.C. Slebos, Samuel H. Payne, Sherri R. Davies, Shuang Cai, Stephen E. Stein, Steven A. Carr, Steven J. Skates, Subha Madhavan, Tao Liu, Xian Chen, Yingming Zhao, Yue Wang, Zhiao Shi
Published 2020-10-01

MitoCarta2.0: an updated inventory of mammalian mitochondrial proteins

by Calvo, Sarah E., Clauser, Karl R., Mootha, Vamsi K.
Published 2016

Extracellular matrix signatures of human mammary carcinoma identify novel metastasis promoters

by Naba, Alexandra, Clauser, Karl R., Carr, Steven A., Lamar, John, Hynes, Richard O
Published 2014

Sequencing the Mouse Y Chromosome Reveals Convergent Gene Acquisition and Amplification on Both Sex Chromosomes

by Pyntikova, Tatyana, Brown, Laura G., Graves, Tina, Minx, Patrick J., Fulton, Robert S., Kremitzki, Colin, Koutseva, Natalia, Mueller, Jacob L., Rozen, Steve, Hughes, Jennifer F., Owens, Elaine, Womack, James E., Murphy, William J., Cao, Qing, de Jong, Pieter, Warren, Wesley C., Wilson, Richard K., Skaletsky, Helen, Soh, Ying Qi Shirleen, Alfoldi, Jessica E., Page, David C
Published 2017

Enrichment of Extracellular Matrix Proteins from Tissues and Digestion into Peptides for Mass Spectrometry Analysis

by Clauser, Karl R., Naba, Alexandra, Hynes, Richard O.
Published 2017