ArticlePLoS computational biology2010
How to understand the cell by breaking it: network analysis of gene perturbation screens.
Article in PLoS computational biology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers, 1 of them a synthesis that pooled 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.
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.
Who cites it
34 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Gene Network Rewiring to Study Melanoma Stage Progression and Elements Essential for Driving Melanoma.PloS one · 2015Pooled it
- Scouter predicts transcriptional responses to genetic perturbations with large language model embeddings.Nature computational science · 2026Article
- Article
- From pixels to phenotypes: Integrating image-based profiling with cell health data as BioMorph features improves interpretability.Molecular biology of the cell · 2024Article
- PRSet: Pathway-based polygenic risk score analyses and software.PLoS genetics · 2023Article
- Predicting cell health phenotypes using image-based morphology profiling.Molecular biology of the cell · 2021Article
- MasterPATH: network analysis of functional genomics screening data.BMC genomics · 2020Article
- Learning signaling networks from combinatorial perturbations by exploiting siRNA off-target effects.Bioinformatics (Oxford, England) · 2019Article
- From observing to predicting single-cell structure and function with high-throughput/high-content microscopy.Essays in biochemistry · 2019Review
- Bioinformatics challenges and perspectives when studying the effect of epigenetic modifications on alternative splicing.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2018Review
- Identification of highly connected and differentially expressed gene subnetworks in metastasizing endometrial cancer.PloS one · 2018Article
- Incorporating interaction networks into the determination of functionally related hit genes in genomic experiments with Markov random fields.Bioinformatics (Oxford, England) · 2017Article
- Inferring modulators of genetic interactions with epistatic nested effects models.PLoS computational biology · 2017Article
- A Review of Pathway-Based Analysis Tools That Visualize Genetic Variants.Frontiers in genetics · 2017Review
- Linear effects models of signaling pathways from combinatorial perturbation data.Bioinformatics (Oxford, England) · 2016Article
- gespeR: a statistical model for deconvoluting off-target-confounded RNA interference screens.Genome biology · 2015Article
- Gene Perturbation Atlas (GPA): a single-gene perturbation repository for characterizing functional mechanisms of coding and non-coding genes.Scientific reports · 2015Article
- Deciphering Signaling Pathway Networks to Understand the Molecular Mechanisms of Metformin Action.PLoS computational biology · 2015Article
- Single-cell and multivariate approaches in genetic perturbation screens.Nature reviews. Genetics · 2015Review
- Dynamics of cell shape inheritance in fission yeast.PloS one · 2014Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
1 author.
Funding
No grant is acknowledged in the PubMed record.
Abstract
PubMed holds no abstract for this paper.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
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.