• CSV Spreadsheet
  • RSS Feed
(1 - 20 of 21)

Pages

Get it at UPEI
Bookmarks:
Title
Improving MHC-I ligand identification by incorporating targeted searches of mass spectrometry data
Source
Bioinformatics for cancer immunotherapy
Date
2020
Author
Prathyusha, Konda; Murphy, J Patrick; Gujar, Shashi
Genre
Book, Section
Abstract
Effective immunotherapies rely on specific activation of immune cells. Class I major histocompatibility complex (MHC-I) bound peptide ligands play...
Start Page
161
DOI
10.1007/978-1-0716-0327-7_11
Get it at UPEI
Bookmarks:
Title
Targeted proteomic analysis of glycolysis in cancer cells
Source
Journal of Proteome Research
Date
2011
Author
Murphy, J. Patrick; Pinto, Devanand M.
Genre
Journal Article
Abstract
Altered expression of glycolysis proteins is an important yet poorly understood characteristic of cancer. To better understand the glycolytic...
Volume
10
Issue
2
Start Page
604
DOI
10.1021/pr100774f
Get it at UPEI
Bookmarks:
Title
Temporal proteomic analysis of IGF-1R signalling in MCF-7 breast adenocarcinoma cells
Source
PROTEOMICS
Date
2010
Author
Murphy, J. Patrick; Pinto, Devanand M.
Genre
Journal Article
Abstract
Dysregulation of the insulin‐like growth factor 1 receptor signalling network is implicated in tumour growth and resistance to chemotherapy. We...
Volume
10
Issue
9
Start Page
1847
DOI
10.1002/pmic.200900711
Get it at UPEI
Bookmarks:
Title
Improving MHC-I ligand identifications from LC-MS/MS data by incorporating allelic peptide motifs
Source
PROTEOMICS
Date
2019
Author
Konda, Prathyusha; Murphy, J. Patrick; Gujar, Shashi
Genre
Journal Article
Abstract
MHC class I (MHC-I)-bound ligands play a pivotal role in CD8 T cell immunity and are hence of major interest in understanding and designing...
Volume
19
Issue
5
Start Page
1800458
DOI
10.1002/pmic.201800458
Get it at UPEI
Bookmarks:
Title
Improved thermal proteomic profiling techniques to assess the effect of metabolically altered thermal protein stability
Source
2021 UPEI Graduate Studies and Research Conference
Date
2021
Author
Sultonova, Mukhayyo; Wolters, Grant; Murphy, J. Patrick
Genre
Abstract
Abstract
Advances in quantitative proteomics have enabled a deeper understanding of changes in protein thermal stability as an indicator of protein-ligand...
Get it at UPEI
Bookmarks:
Title
Enhancing mass spectrometry-based MHC-I peptide identification through a targeted database search approach
Source
Immunoproteomics
Date
2019
Author
Prathyusha, Konda; Murphy, J. Patrick; Nielsen, Morten; Gujar, Shashi
Genre
Book, Section
Abstract
MHC-bound peptide ligands dictate the activation and specificity of CD8+ T- cells-based and thus are important for devising T-cell immunotherapies....
Start Page
301
DOI
10.1007/978-1-4939-9597-4_19
Get it at UPEI
Bookmarks:
Title
Comprehensive temporal protein dynamics during the diauxic shift in saccharomyces cerevisiae
Source
Molecular & Cellular Proteomics
Date
2015
Author
Murphy, J. Patrick; Stepanova, Ekaterina; Everley, Robert A.; Paulo, Joao A.; Gygi, Steven P.
Genre
Journal Article
Abstract
Yeast (Saccharomyces cerevisiae) has served as a key model system in biology and as a benchmark for “omics” technology. Although near-complete...
Volume
14
Issue
9
Start Page
2454
DOI
10.1074/mcp.M114.045849
Get it at UPEI
Bookmarks:
Title
Combining amine metabolomics and quantitative proteomics of cancer cells using derivatization with isobaric tags
Source
Analytical Chemistry
Date
2014
Author
Murphy, J. Patrick; Everley, Robert A.; Coloff, Jonathan L.; Gygi, Steven P.
Genre
Journal Article
Abstract
Quantitative metabolomics and proteomics technologies are powerful approaches to explore cellular metabolic regulation. Unfortunately, combining...
Volume
86
Issue
7
Start Page
3585
DOI
10.1021/ac500153a
Get it at UPEI
Bookmarks:
Title
Relative quantitative proteomic analysis reveals wound response proteins correlated with after-cooking darkening
Source
PROTEOMICS
Date
2010
Author
Murphy, J. Patrick; Kong, Fanming; Pinto, Devanand M.; Wang-Pruski, Gefu
Genre
Journal Article
Abstract
Many common potato tuber defects are difficult to elicidate because of the degree of genetic complexity involved, making systems biology approaches...
Volume
10
Issue
23
Start Page
4258
DOI
10.1002/pmic.200900718
Get it at UPEI
Bookmarks:
Title
Differential glutamate metabolism in proliferating and quiescent mammary epithelial cells
Source
Cell Metabolism
Date
2016
Author
Coloff, Jonathan L.; Murphy, J. Patrick; Braun, Craig R.; Harris, Isaac S.; Shelton, Laura M.; Kami, Kenjiro; Gygi, Steven P.; Selfors, Laura M.; Brugge, Joan S.
Genre
Journal Article
Abstract
Mammary epithelial cells transition between periods of proliferation and quiescence during development, menstrual cycles, and pregnancy, and as a...
Volume
23
Issue
5
Start Page
867
DOI
10.1016/j.cmet.2016.03.016
Get it at UPEI
Bookmarks:
Title
Promoter decommissioning by the NuRD chromatin remodeling complex triggers synaptic connectivity in the mammalian brain
Source
Neuron
Date
2014
Author
Yamada, Tomoko; Yang, Yue; Hemberg, Martin; Yoshida, Toshimi; Cho, Ha Young; Murphy, J. Patrick; Fioravante, Diasynou; Regehr, Wade G.; Gygi, Steven P.; Georgopoulos, Katia; Bonni, Azad
Genre
Journal Article
Abstract
Precise control of gene expression plays fundamental roles in brain development, but the roles of chromatin regulators in neuronal connectivity...
Volume
83
Issue
1
Start Page
122
DOI
10.1016/j.neuron.2014.05.039
Get it at UPEI
Bookmarks:
Title
The intraflagellar transport protein IFT27 promotes BBSome exit from cilia through the GTPase ARL6/BBS3
Source
Developmental Cell
Date
2014
Author
Liew, Gerald M.; Ye, Fan; Nager, Andrew R.; Murphy, J. Patrick; Lee, Jaclyn S.; Aguiar, Mike; Breslow, David K.; Gygi, Steven P.; Nachury, Maxence V.
Genre
Journal Article
Abstract
The sorting of signaling receptors into and out of cilia relies on the BBSome, a complex of Bardet-Biedl syndrome (BBS) proteins, and on the...
Volume
31
Issue
3
Start Page
265
DOI
10.1016/j.devcel.2014.09.004
Get it at UPEI
Bookmarks:
Title
An adenosine triphosphate-independent proteasome activator contributes to the virulence of Mycobacterium tuberculosis
Source
Proceedings of the National Academy of Sciences
Date
2015
Author
Jastrab, Jordan B.; Wang, Tong; Murphy, J. Patrick; Bai, Lin; Hu, Kuan; Merkx, Remco; Huang, Jessica; Chatterjee, Champak; Ovaa, Huib; Gygi, Steven P.; Li, Huilin; Darwin, K. Heran
Genre
Journal Article
Abstract
Mycobacterium tuberculosis encodes a proteasome that is highly similar to eukaryotic proteasomes and is required to cause lethal infections in...
Volume
112
Issue
14
Start Page
E1763
DOI
10.1073/pnas.1423319112
Get it at UPEI
Bookmarks:
Title
MHC-I ligand discovery using targeted database searches of mass spectrometry data
Subtitle
Implications for T-cell immunotherapies
Source
Journal of Proteome Research
Date
2017
Author
Murphy, J. Patrick; Konda, Prathyusha; Kowalewski, Daniel J.; Schuster, Heiko; Clements, Derek; Kim, Youra; Cohen, Alejandro M.; Sharif, Tanveer; Nielsen, Morten; Stevanovic, Stefan; Lee, Patrick W.; Gujar, Shashi
Genre
Journal Article
Abstract
Class I major histocompatibility complex (MHC-I)-bound peptide ligands dictate the activation and specificity of CD8+ T cells and thus are...
Volume
16
Issue
4
Start Page
1806
DOI
10.1021/acs.jproteome.6b00971
Get it at UPEI
Bookmarks:
Title
Therapy-induced MHC I ligands shape neo-antitumor CD8 T cell responses during oncolytic virus-based cancer immunotherapy
Source
Journal of Proteome Research
Date
2019
Author
Murphy, J. Patrick; Kim, Youra; Clements, Derek R.; Konda, Prathyusha; Schuster, Heiko; Kowalewski, Daniel J.; Paulo, Joao A.; Cohen, Alejandro M.; Stevanovic, Stefan; Gygi, Steven P.; Gujar, Shashi
Genre
Journal Article
Abstract
Oncolytic viruses (OVs), known for their cancer-killing characteristics, also overturn tumor-associated defects in antigen presentation through the...
Volume
18
Issue
6
Start Page
2666
DOI
10.1021/acs.jproteome.9b00173
Get it at UPEI
Bookmarks:
Title
RTN4 knockdown dysregulates the AKT pathway, destabilizes the cytoskeleton, and enhances paclitaxel-induced cytotoxicity in cancers
Source
Molecular Therapy
Date
2018
Author
Pathak, Gopal P.; Shah, Rashmi; Kennedy, Barry E.; Murphy, J. Patrick; Clements, Derek; Konda, Prathyusha; Giacomantonio, Michael; Xu, Zhaolin; Schlaepfer, Isabel R.; Gujar, Shashi
Genre
Journal Article
Abstract
Reticulon-4 (RTN4), commonly known as a neurite outgrowth inhibitor (Nogo), is emerging as an important player in human cancers. Clinically, we...
Volume
26
Issue
8
Start Page
2019
DOI
10.1016/j.ymthe.2018.05.026
Get it at UPEI
Bookmarks:
Title
Multiplexed relative quantitation with isobaric tagging mass spectrometry reveals class I major histocompatibility complex ligand dynamics in response to doxorubicin
Source
Analytical Chemistry
Date
2019
Author
Murphy, J. Patrick; Yu, Qijia; Konda, Prathyusha; Paulo, Joao A.; Jedrychowski, Mark P.; Kowalewski, Daniel J.; Schuster, Heiko; Kim, Youra; Clements, Derek; Jain, Aditya; Stevanovic, Stefan; Gygi, Steven P.; Mancias, Joseph D.; Gujar, Shashi
Genre
Journal Article
Abstract
MHC-I peptides are intracellular-cleaved peptides, usually 8–11 amino acids in length, which are presented on the cell surface and facilitate CD8+...
Volume
91
Issue
8
Start Page
5106
DOI
10.1021/acs.analchem.8b05616
Get it at UPEI
Bookmarks:
Title
Quantitative proteome responses to oncolytic reovirus in GM-CSF- and M-CSF-differentiated bone marrow-derived cells
Source
Journal of Proteome Research
Date
2020
Author
Giacomantonio, Michael A.; Sterea, Andra M.; Kim, Youra; Paulo, Joao A.; Clements, Derek R.; Kennedy, Barry E.; Bydoun, Moamen J.; Shi, Ge; Waisman, David M.; Gygi, Steven P.; Giacomantonio, Carman A.; Murphy, J. Patrick; Gujar, Shashi
Genre
Journal Article
Abstract
The efficacy of oncolytic viruses (OVs), such as reovirus, is dictated by host immune responses, including those mediated by the pro- versus anti...
Volume
19
Issue
2
Start Page
708
DOI
10.1021/acs.jproteome.9b00583
Full Text
Bookmarks:
Title
The NAD+ salvage pathway supports PHGDH-driven serine biosynthesis
Source
Cell Reports
Date
2018
Author
Murphy, J. Patrick; Giacomantonio, Michael A.; Paulo, Joao A.; Everley, Robert A.; Kennedy, Barry E.; Pathak, Gopal P.; Clements, Derek R.; Kim, Youra; Dai, Cathleen; Sharif, Tanveer; Gygi, Steven P.; Gujar, Shashi
Genre
Journal Article
Abstract
NAD+ is a key metabolic redox cofactor that is regenerated from nicotinamide through the NAD+ salvage pathway. Here, we find that inhibiting the...
Volume
24
Issue
9
Start Page
2381
DOI
10.1016/j.celrep.2018.07.086
Publication Status
PUBLISHED
Get it at UPEI
Bookmarks:
Title
Breast cancer subtype dictates DNA methylation and ALDH1A3-mediated expression of tumor suppressor RARRES1
Source
Oncotarget
Date
2016
Author
Coyle, Krysta M.; Murphy, J. Patrick; Vidovic, Dejan; Vaghar-Kashani, Ahmad; Dean, Cheryl A.; Sultan, Mohammad; Clements, Derek; Wallace, Melissa; Thomas, Margaret L.; Hundert, Amos; Giacomantonio, Carman A.; Helyer, Lucy; Gujar, Shashi A.; Lee, Patrick W.K.; Weaver, Ian C.G.; Marcato, Paola
Genre
Journal Article
Abstract
Breast cancer subtyping, based on the expression of hormone receptors and other genes, can determine patient prognosis and potential options for...
Volume
7
Issue
28
Start Page
44096
DOI
10.18632/oncotarget.9858

Pages