Evidence map›Paper›PMID 37450151›Full record

ArticleMethods in molecular biology (Clifton, N.J.)2023

Bioinformatic Analysis of Yeast Two-Hybrid Next-Generation Interaction Screen Data.

Valeria Velásquez-Zapata, J Mitch Elmore, Roger P Wise

Abstract read
PubMed Publisher
In one paragraph

Article in Methods in molecular biology (Clifton, N.J.), 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. Article
  3. Powdery mildew effectors AVRMolecular plant pathology · 2024
    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.

Valeria Velásquez-ZapataProgram in Bioinformatics & Computational Biology, Iowa State University, Ames, IA, USA. vvelasqz@iastate.edu.
J Mitch ElmoreDepartment of Plant Pathology, Entomology and Microbiology, Iowa State University, Ames, IA, USA.
Roger P WiseProgram in Bioinformatics & Computational Biology, Iowa State University, Ames, IA, USA. roger.wise@usda.gov.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Yeast two-hybrid next-generation interaction screening (Y2H-NGIS) uses the output of next-generation sequencing to mine for novel protein-protein interactions. Here, we outline the analytics underlying Y2H-NGIS datasets. Different systems, libraries, and experimental designs comprise Y2H-NGIS methodologies. We summarize the analysis in several layers that comprise the characterization of baits and preys, quantification, and identification of true interactions for subsequent secondary validation. We present two software designed for this purpose, NGPINT and Y2H-SCORES, which are used as front-end and back-end tools in the analysis. Y2H-SCORES software can be used and adapted to analyze different datasets not only from Y2H-NGIS but from other techniques ruled by similar biological principles.

Indexed as

Computational BiologySaccharomyces cerevisiaeTwo-Hybrid System Techniquesinteraction predictionNext Generation Interaction Screening (NGIS)ranking interactionsSystems biologyYeast two-hybrid (Y2H)

Identifiers

PMID37450151

What OpenQuestion holds

Textmetadata
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.