Zobrazeno 1 - 10
of 60
pro vyhledávání: '"Kristen M Naegle"'
Publikováno v:
Nature Communications, Vol 13, Iss 1, Pp 1-16 (2022)
Kinases are important drug targets, but predicting their activities from phosphoproteomics data remains challenging. While many existing prediction tools rely on phosphosite-specific quantitative data, Crowl et al. develop a kinase activity predictio
Externí odkaz:
https://doaj.org/article/17765b6e09df4c2d805f950c93df9c4b
Autor:
Kristen M Naegle
Publikováno v:
PLoS Computational Biology, Vol 17, Iss 12, p e1009554 (2021)
Externí odkaz:
https://doaj.org/article/680bf029654f463487f550569e5f0d6c
Autor:
Luciano Galdieri, Arijita Jash, Olga Malkova, Diane D. Mao, Patrick DeSouza, Yunli E. Chu, Amber Salter, Jian L. Campian, Kristen M. Naegle, Cameron W. Brennan, Hiroaki Wakimoto, Stephen T. Oh, Albert H. Kim, Milan G. Chheda
Publikováno v:
JCI Insight, Vol 6, Iss 4 (2021)
Most patients with glioblastoma (GBM) die within 2 years. A major therapeutic goal is to target GBM stem cells (GSCs), a subpopulation of cells that contribute to treatment resistance and recurrence. Since their discovery in 2003, GSCs have been isol
Externí odkaz:
https://doaj.org/article/3ad4223883d44065a3189bf98ee59bd8
Publikováno v:
PLoS Computational Biology, Vol 17, Iss 2, p e1008681 (2021)
Tyrosine and serine/threonine kinases are essential regulators of cell processes and are important targets for human therapies. Unfortunately, very little is known about specific kinase-substrate relationships, making it difficult to infer meaning fr
Externí odkaz:
https://doaj.org/article/ddb61d61fc9444e891b5b2dcac0c88e8
Publikováno v:
PLoS Computational Biology, Vol 16, Iss 3, p e1007741 (2020)
We present ProteoClade, a Python toolkit that performs taxa-specific peptide assignment, protein inference, and quantitation for multi-species proteomics experiments. ProteoClade scales to hundreds of millions of protein sequences, requires minimal c
Externí odkaz:
https://doaj.org/article/b2182dcef262434096d189eeef86a1f6
Autor:
Roman Sloutsky, Kristen M Naegle
Publikováno v:
eLife, Vol 8 (2019)
Evolutionary reconstruction algorithms produce models of the evolutionary history of proteins or species. Such algorithms are highly sensitive to their inputs: the sequences used and their alignments. Here, we asked whether the variance introduced by
Externí odkaz:
https://doaj.org/article/b4913379e0d54a1dbd77f4592d7f83df
Fibroblasts are essential regulators of extracellular matrix deposition following cardiac injury. These cells exhibit highly plastic responses in phenotype during fibrosis in response to environmental stimuli. Here, we test whether and how candidate
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::ffb4d6803ac773b3e9a8053714c2cb0c
https://doi.org/10.1101/2023.03.01.530599
https://doi.org/10.1101/2023.03.01.530599
Autor:
Margarida Barroso, Milan G. Chheda, Hans Clevers, Elena Elez, Salma Kaochar, Scott E. Kopetz, Xiao-Nan Li, Funda Meric-Bernstam, Clifford A. Meyer, Haiwei Mou, Kristen M. Naegle, Martin F. Pera, Zinaida Perova, Katerina A. Politi, Benjamin J. Raphael, Paul Robson, Rosalie C. Sears, Josep Tabernero, David A. Tuveson, Alana L. Welm, Bryan E. Welm, Christopher D. Willey, Konstantin Salnikow, Jeffrey H. Chuang, Xiling Shen
Publikováno v:
Cancer Cell. Cell Press
3D patient tumor avatars (3D-PTAs) hold promise for next-generation precision medicine. Here, we describe the benefits and challenges of 3D-PTA technologies and necessary future steps to realize their potential for clinical decision making. 3D-PTAs r
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::7b65654a1b4acc56953d02023b85344d
https://pubmed.ncbi.nlm.nih.gov/36270276
https://pubmed.ncbi.nlm.nih.gov/36270276
Autor:
Roman Sloutsky, Kristen M Naegle
Publikováno v:
PLoS ONE, Vol 11, Iss 9, p e0162579 (2016)
Since the advent of large-scale genomic sequencing, and the consequent availability of large numbers of homologous protein sequences, there has been burgeoning development of methods for extracting functional information from multiple sequence alignm
Externí odkaz:
https://doaj.org/article/f554e88d0bd94a7b9f2cdff44dddfa13
Publikováno v:
J Biol Chem
Protein domain interactions with short linear peptides, such as Src homology 2 (SH2) domain interactions with phosphotyrosine-containing peptide motifs (pTyr), are ubiquitous and important to many biochemical processes of the cell. The desire to map
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::115070e26de0b34c42f943d80d19d138
https://doi.org/10.1074/jbc.ra120.012503
https://doi.org/10.1074/jbc.ra120.012503