Zobrazeno 1 - 10
of 140
pro vyhledávání: '"Alexander R. Pico"'
Autor:
Min-Gyoung Shin, Alexander R. Pico
Publikováno v:
BMC Genomics, Vol 24, Iss 1, Pp 1-13 (2023)
Abstract Pathway Figure OCR (PFOCR) is a novel kind of pathway database approaching the breadth and depth of Gene Ontology while providing rich, mechanistic diagrams and direct literature support. Here, we highlight the utility of PFOCR in disease re
Externí odkaz:
https://doaj.org/article/2a32d59966b440feb6469bc17b297e39
Autor:
Krishna Choudhary, Alexander R. Pico
Publikováno v:
F1000Research, Vol 10 (2022)
Rapid technological advances in the past decades have enabled molecular biologists to generate large-scale and complex data with affordable resource investments, or obtain such data from public repositories. Yet, many graduate students, postdoctoral
Externí odkaz:
https://doaj.org/article/cb13328e0ddf458b934f8c79fa8e1469
Publikováno v:
Genome Biology, Vol 21, Iss 1, Pp 1-18 (2020)
Abstract Thousands of pathway diagrams are published each year as static figures inaccessible to computational queries and analyses. Using a combination of machine learning, optical character recognition, and manual curation, we identified 64,643 pat
Externí odkaz:
https://doaj.org/article/f4dfb51dfaaf44c182ed2061604307b6
Publikováno v:
Genome Biology, Vol 20, Iss 1, Pp 1-15 (2019)
Abstract Cytoscape is one of the most successful network biology analysis and visualization tools, but because of its interactive nature, its role in creating reproducible, scalable, and novel workflows has been limited. We describe Cytoscape Automat
Externí odkaz:
https://doaj.org/article/6c60a4e1188a429db808a8e867d64e3f
Autor:
Krishna Choudhary, Alexander R. Pico
Publikováno v:
F1000Research, Vol 10 (2021)
Rapid technological advances in the past decades have enabled molecular biologists to generate large-scale and complex data with affordable resource investments, or obtain such data from public repositories. Yet, many graduate students, postdoctoral
Externí odkaz:
https://doaj.org/article/62b01cb04114494f9d03b7890170e845
Autor:
Krishna Choudhary, Elaine C. Meng, J. Javier Diaz-Mejia, Gary D. Bader, Alexander R. Pico, John H. Morris
Publikováno v:
F1000Research, Vol 10 (2021)
Single-cell RNA-sequencing (scRNA-seq) has revolutionized molecular biology and medicine by enabling high-throughput studies of cellular heterogeneity in diverse tissues. Applying network biology approaches to scRNA-seq data can provide useful insigh
Externí odkaz:
https://doaj.org/article/d1b920056d384c8aa9941a2eb0afd0f1
Publikováno v:
F1000Research, Vol 8 (2019)
RCy3 is an R package in Bioconductor that communicates with Cytoscape via its REST API, providing access to the full feature set of Cytoscape from within the R programming environment. RCy3 has been redesigned to streamline its usage and future devel
Externí odkaz:
https://doaj.org/article/ef7f48e306e744b082207f552f024fe9
Publikováno v:
F1000Research, Vol 8 (2019)
RCy3 is an R package in Bioconductor that communicates with Cytoscape via its REST API, providing access to the full feature set of Cytoscape from within the R programming environment. RCy3 has been redesigned to streamline its usage and future devel
Externí odkaz:
https://doaj.org/article/74ac6b2fe28b454e9b4febd9dee8bd45
Publikováno v:
F1000Research, Vol 8 (2019)
RCy3 is an R package in Bioconductor that communicates with Cytoscape via its REST API, providing access to the full feature set of Cytoscape from within the R programming environment. RCy3 has been redesigned to streamline its usage and future devel
Externí odkaz:
https://doaj.org/article/c40accd6f0a7409da5ee9ab6f9049433
Autor:
J. Javier Diaz-Mejia, Elaine C. Meng, Alexander R. Pico, Sonya A. MacParland, Troy Ketela, Trevor J. Pugh, Gary D. Bader, John H. Morris
Publikováno v:
F1000Research, Vol 8 (2019)
Background: Identification of cell type subpopulations from complex cell mixtures using single-cell RNA-sequencing (scRNA-seq) data includes automated steps from normalization to cell clustering. However, assigning cell type labels to cell clusters i
Externí odkaz:
https://doaj.org/article/25cf40df8e1541cc95186df61d5529c0