Evidence map›Paper›PMID 37035036›Full record

ArticleFrontiers in bioinformatics2023

Translating desktop success to the web in the cytoscape project.

Dexter Pratt, Rudolf T Pillich, John H Morris

Abstract read
In one paragraph

Article in Frontiers in bioinformatics, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.

0numbers the graph read from it
0cells of the map it votes in
2citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

2 citing papers in PubMed.

  1. Review
  2. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

3 authors.

Dexter PrattDivision of Genetics, Department of Medicine, University of California San Diego, La Jolla, CA, United States.
Rudolf T PillichDivision of Genetics, Department of Medicine, University of California San Diego, La Jolla, CA, United States.
John H MorrisResource on Biocomputing, Visualization, and Informatics, University of California San Francisco, San Francisco, CA, United States.

Funding

The Cancer Cell Map Initiative v2.0U54CA274502 · NCI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Trey Ideker · 2022 to 2026
$14.2M
CYTOSCAPE: AN ECOSYSTEM FOR NETWORK GENOMICSU24HG012107 · NHGRI · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI Jing Chen, PIETER C DORRESTEIN · 2022 to 2026
$6.5M
NCI NIH HHS U54 CA274502NHGRI NIH HHS U24 HG012107
6 · The paper itself

Abstract

Cytoscape is an open-source bioinformatics environment for the analysis, integration, visualization, and query of biological networks. In this perspective piece, we describe our project to bring the Cytoscape desktop application to the web while explaining our strategy in ways relevant to others in the bioinformatics community. We examine opportunities and challenges in developing bioinformatics software that spans both the desktop and web, and we describe our ongoing efforts to build a Cytoscape web application, highlighting the principles that guide our development.

Indexed as

bioinformaticscytoscapedata visualisationnetwork biologysoftware developmentsystems biology

Identifiers

PMID37035036
PMCPMC10076771

What OpenQuestion holds

Textmetadata
LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.