Zobrazeno 1 - 10
of 38
pro vyhledávání: '"Kristen M Naegle"'
Autor:
Kristen M Naegle
Publikováno v:
PLoS Computational Biology, Vol 17, Iss 12, p e1009554 (2021)
Externí odkaz:
https://doaj.org/article/680bf029654f463487f550569e5f0d6c
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
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
Autor:
Alex S Holehouse, Kristen M Naegle
Publikováno v:
PLoS ONE, Vol 10, Iss 12, p e0144692 (2015)
BACKGROUND:Protein post-translational modifications (PTMs) are an important aspect of protein regulation. The number of PTMs discovered within the human proteome, and other proteomes, has been rapidly expanding in recent years. As a consequence of th
Externí odkaz:
https://doaj.org/article/7212f57944014c2e86232c6dafcf4eb9
Publikováno v:
PLoS Computational Biology, Vol 7, Iss 7, p e1002119 (2011)
Advances in proteomic technologies continue to substantially accelerate capability for generating experimental data on protein levels, states, and activities in biological samples. For example, studies on receptor tyrosine kinase signaling networks c
Externí odkaz:
https://doaj.org/article/af8d764284f24510982dfb8530f1e089
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
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