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Karni Bedirian

dblp:312/2689 · DBLP profile ↗
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1ranked-venue papers
0as first author
0since 2021 · last 2020
—ORCID · none

Domains — the database's venue-derived domains; a paper can count in several

Applied, interdisciplinary, general and emerging computing · 1

Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.

Interdisciplinary, comprehensive, and emerging computing
1 paper
Bioinformatics and computational biology · 100%

Topics — the 3 heaviest of 5, each with the papers that count most for it

TopicWeightPapersLastEvidence papers
Bioinformatics and computational biology › epigenomics
chromatin conformation analysis
0.412020
DNA Rchitect: an R based visualizer for network analysis of chromatin interaction data · Bioinform. 2020
Bioinformatics and computational biology › network bioinformatics › biological network analysis
network analysis
0.412020
DNA Rchitect: an R based visualizer for network analysis of chromatin interaction data · Bioinform. 2020
Bioinformatics and computational biology › genomics
genome visualization
0.112020
DNA Rchitect: an R based visualizer for network analysis of chromatin interaction data · Bioinform. 2020

Methods — techniques the papers use, named apart from their topics

network analysis · 0.4
YearPublicationVenuePosition
2020 DNA Rchitect: an R based visualizer for network analysis of chromatin interaction data
abstract
MOTIVATION: Visualization of multiple genomic data generally requires the use of public or commercially hosted browsers. Flexible visualization of chromatin interaction data as genomic features and network components offer informative insights to gene expression. An open source application for visualizing HiC and chromatin conformation-based data as 2D-arcs accompanied by interactive network analyses is valuable. RESULTS: DNA Rchitect is a new tool created to visualize HiC and chromatin conformation-based contacts at high (Kb) and low (Mb) genomic resolutions. The user can upload their pre-filtered HiC experiment in bedpe format to the DNA Rchitect web app that we have hosted or to a version they themselves have deployed. Using DNA Rchitect, the uploaded data allows the user to visualize different interactions of their sample, perform simple network analyses, while also offering visualization of other genomic data types. The user can then download their results for additional network functionality offered in network based programs such as Cytoscape. AVAILABILITY AND IMPLEMENTATION: DNA Rchitect is freely available both as a web application written primarily in R available at http://shiny.immgen.org/DNARchitect/ and as an open source released under an MIT license at: https://github.com/alosdiallo/DNA_Rchitect.
Ricardo N. Ramirez, Karni Bedirian, Simon M. Gray, Alos B. Diallo
Bioinform.2