Evidence map›Paper›PMID 29351850›Full record

ArticleMolecular cell2018

Systematic Gene-to-Phenotype Arrays: A High-Throughput Technique for Molecular Phenotyping.

Philipp A Jaeger, Lilia Ornelas, Cameron McElfresh, Lily R Wong, Randolph Y Hampton, Trey Ideker

Open access · bronzeAbstract read
In one paragraph

Article in Molecular cell, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.

0numbers the graph read from it
0cells of the map it votes in
9citing papers in PubMed
0.6field-weighted citation impact, top 35% of its field
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

9 citing papers in PubMed, 11 citations in OpenAlex.

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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

6 authors at 1 institution in 1 country.

Philipp A JaegerBiocipher(x), Inc., San Diego, CA 92121, USA; Department of Medicine, University of California, San Diego, La Jolla, CA 92093, USA. Electronic address: pjaeger@biocrx.com.
Lilia OrnelasDivision of Biological Sciences, University of California, San Diego, La Jolla, CA 92093, USA.
Cameron McElfreshDepartment of Nanoengineering, University of California, San Diego, La Jolla, CA 92093, USA.
Lily R WongDepartment of Bioengineering, University of California, San Diego, La Jolla, CA 92093, USA.
Randolph Y HamptonDivision of Biological Sciences, University of California, San Diego, La Jolla, CA 92093, USA. Electronic address: rhampton@ucsd.edu.
Trey IdekerDepartment of Medicine, University of California, San Diego, La Jolla, CA 92093, USA; Department of Bioengineering, University of California, San Diego, La Jolla, CA 92093, USA. Electronic address: tideker@ucsd.edu.
University of California, San Diego · US

Funding

GENETIC MECHANISMS AND REGULATIONT32GM007240 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI HAMPTON, RANDOLPH Y. · 1985 to 2019
$23.8M
A Systems Approach to Mapping the DNA Damage ResponseR01ES014811 · NIEHS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI IDEKER, TREY · 2005 to 2021
$8.6M
Comparative Analysis of Genetic Interaction NetworksR01GM084279 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI IDEKER, TREY, KROGAN, NEVAN J · 2008 to 2017
$3.9M
Protein degradation and cholesterol regulationR37DK051996 · NIDDK · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI HAMPTON, RANDOLPH Y. · 2012 to 2020
$3.2M
Ubr1: A Protein Quality Control E3 Ubiquitin LigaseR01GM092748 · NIGMS · UNIVERSITY OF CALIFORNIA, SAN DIEGO · PI HAMPTON, RANDOLPH Y. · 2011 to 2014
$1.1M
An integrative multi-phenotype pipeline for drug evaluation, pharmacogenomics, and attribute predictionR41TR001908 · NCATS · PHENVOGEN, LLC · PI JAEGER, PHILIPP · 2017 to 2017
$225k
NCATS NIH HHS R41 TR001908NIDDK NIH HHS R37 DK051996NIEHS NIH HHS R01 ES014811NIGMS NIH HHS R01 GM084279NIGMS NIH HHS R01 GM092748NIGMS NIH HHS T32 GM007240
6 · The paper itself

Abstract

We have developed a highly parallel strategy, systematic gene-to-phenotype arrays (SGPAs), to comprehensively map the genetic landscape driving molecular phenotypes of interest. By this approach, a complete yeast genetic mutant array is crossed with fluorescent reporters and imaged on membranes at high density and contrast. Importantly, SGPA enables quantification of phenotypes that are not readily detectable in ordinary genetic analysis of cell fitness. We benchmark SGPA by examining two fundamental biological phenotypes: first, we explore glucose repression, in which SGPA identifies a requirement for the Mediator complex and a role for the CDK8/kinase module in regulating transcription. Second, we examine selective protein quality control, in which SGPA identifies most known quality control factors along with U

Indexed as

Cyclin-Dependent Kinase 8Gene Regulatory NetworksGenotypeHigh-Throughput Nucleotide SequencingHigh-Throughput Screening AssaysMediator ComplexOligonucleotide Array Sequence AnalysisPhenotypeSaccharomyces cerevisiaeSaccharomyces cerevisiae ProteinsCyclin-Dependent Kinase 8Mediator ComplexSaccharomyces cerevisiae ProteinsSSN3 protein, S cerevisiaeE-MAPfluorescencehigh-throughputmediatorphenotypingprotein foldingS. cerevisiaeSGAyeast

Identifiers

PMID29351850
PMCPMC5777277
OpenAlexW2784198134

What OpenQuestion holds

Textmetadata
LicenceTDM
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.