ArticleDatabase : the journal of biological databases and curation2013
ESCAPE: database for integrating high-content published data collected from human and mouse embryonic stem cells.
Article in Database : the journal of biological databases and curation, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 85 papers.
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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.
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Who cites it
85 citing papers in PubMed.
- Computational Network Analysis for Defining Transcriptional Programs.Methods in molecular biology (Clifton, N.J.) · 2027Article
- GLM-Prior: a genomic language model for transferable sequence-derived priors in gene regulatory network inference.Nature communications · 2026Article
- IAGRN: An Interleaved-Attention Graph Neural Network for Gene Regulatory Network Inference.International journal of molecular sciences · 2026Article
- DNA Methyltransferase Inhibition Prevents Platinum-Induced Ovarian Cancer Stem Cell Enrichment.Cancer research communications · 2026Article
- Inferring cell-specific gene regulatory networks based on causal graph embedding.Cell reports methods · 2026Article
- SC-MO-GRN-DB: A comprehensive repository for single-cell multiomic gene regulatory networks.iScience · 2026Article
- Cell type-specific gene regulatory network inference from single cell transcriptomics with ctOTVelo.bioRxiv : the preprint server for biology · 2026Article
- CaHoT-GRN: context-aware high-order topology learning for robust single-cell gene regulatory network inference.Briefings in bioinformatics · 2026Article
- The frequency response of networks as open systems.Nature communications · 2026Article
- Revealing hidden regulatory dependencies: multi-perspective graph learning for single-cell gene regulatory network inference.Briefings in bioinformatics · 2026Article
- SIGMA: self-supervised inference of gene networks via masked auto-encoding.Frontiers in genetics · 2026Article
- TDAGENE: Inference of Gene Regulatory Network Based on Topological Data Analysis and Graph Attention Network for Single-Cell RNA Sequencing Data.Computational and structural biotechnology journal · 2026Article
- Improved gene regulatory network inference from single cell data with dropout augmentation.PLoS computational biology · 2025Article
- Cell-GraphCompass: modeling single cells with graph structure foundation model.National science review · 2025Article
- Toti: An integrated multi-omics database to decipher the epigenetic regulation of gene expression in totipotent stem cells.Stem cell reports · 2025Article
- GRANet: a graph residual attention network for gene regulatory network inference.Briefings in bioinformatics · 2025Article
- GAEDGRN: reconstruction of gene regulatory networks based on gravity-inspired graph autoencoders.Briefings in bioinformatics · 2025Article
- Inferring gene regulatory networks by hypergraph generative model.Cell reports methods · 2025Article
- GRLGRN: graph representation-based learning to infer gene regulatory networks from single-cell RNA-seq data.BMC bioinformatics · 2025Article
- Unravelling Convergent Signaling Mechanisms Underlying the Aging-Disease Nexus Using Computational Language Analysis.Current issues in molecular biology · 2025Article
25 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
9 authors.
Funding
Abstract
High content studies that profile mouse and human embryonic stem cells (m/hESCs) using various genome-wide technologies such as transcriptomics and proteomics are constantly being published. However, efforts to integrate such data to obtain a global view of the molecular circuitry in m/hESCs are lagging behind. Here, we present an m/hESC-centered database called Embryonic Stem Cell Atlas from Pluripotency Evidence integrating data from many recent diverse high-throughput studies including chromatin immunoprecipitation followed by deep sequencing, genome-wide inhibitory RNA screens, gene expression microarrays or RNA-seq after knockdown (KD) or overexpression of critical factors, immunoprecipitation followed by mass spectrometry proteomics and phosphoproteomics. The database provides web-based interactive search and visualization tools that can be used to build subnetworks and to identify known and novel regulatory interactions across various regulatory layers. The web-interface also includes tools to predict the effects of combinatorial KDs by additive effects controlled by sliders, or through simulation software implemented in MATLAB. Overall, the Embryonic Stem Cell Atlas from Pluripotency Evidence database is a comprehensive resource for the stem cell systems biology community. Database URL: http://www.maayanlab.net/ESCAPE
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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.