ArticleNucleic acids research2011
The Gene Expression Barcode: leveraging public data repositories to begin cataloging the human and murine transcriptomes.
Article in Nucleic acids research, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 105 papers, 2 of them syntheses that pooled it.
What it found
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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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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.
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Who cites it
105 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- The Impact of Stroma Admixture on Molecular Subtypes and Prognostic Gene Signatures in Serous Ovarian Cancer.Cancer epidemiology, biomarkers & prevention : a publication of the American Association for Cancer Research, cosponsored by the American Society of Preventive Oncology · 2020Pooled it
- Meta-Analysis of Placental Transcriptome Data Identifies a Novel Molecular Pathway Related to Preeclampsia.PloS one · 2015Pooled it
- CD45 and Basigin (CD147) Are Functional Ligands for Galectin-8 on Human Leukocytes.Biomolecules · 2025Article
- Nerve growth factor: what can surgeons and oncologists learn from a neurological and psychological biomarker?Molecular medicine (Cambridge, Mass.) · 2025Review
- A strategy to detect metabolic changes induced by exposure to chemicals from large sets of condition-specific metabolic models computed with enumeration techniques.BMC bioinformatics · 2024Article
- A variational autoencoder trained with priors from canonical pathways increases the interpretability of transcriptome data.PLoS computational biology · 2024Article
- A probabilistic gene expression barcode for annotation of cell types from single-cell RNA-seq data.Biostatistics (Oxford, England) · 2022Article
- Transcriptomic Harmonization as the Way for Suppressing Cross-Platform Bias and Batch Effect.Biomedicines · 2022Review
- Gene network modeling via TopNet reveals functional dependencies between diverse tumor-critical mediator genes.Cell reports · 2021Article
- Gene expression barcode values reveal a potential link between Parkinson's disease and gastric cancer.Aging · 2021Article
- DEXOM: Diversity-based enumeration of optimal context-specific metabolic networks.PLoS computational biology · 2021Article
- A dynamic multi-tissue model to study human metabolism.NPJ systems biology and applications · 2021Article
- Whole-Genome Sequencing Reveals Exonic Variation ofFrontiers in medicine · 2021Article
- Methods for correcting inference based on outcomes predicted by machine learning.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Identification of novel genes associated with dysregulation of B cells in patients with primary Sjögren's syndrome.Arthritis research & therapy · 2020Article
- Cryo-EM structure of rhinovirus C15a bound to its cadherin-related protein 3 receptor.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Cancer targeting by TCR gene-engineered T cells directed against Kita-Kyushu Lung Cancer Antigen-1.Journal for immunotherapy of cancer · 2019Article
- An integrative method to predict signalling perturbations for cellular transitions.Nucleic acids research · 2019Article
- A benchmark-driven approach to reconstruct metabolic networks for studying cancer metabolism.PLoS computational biology · 2019Article
- Blind normalization of public high-throughput databases.PeerJ. Computer science · 2019Article
45 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
5 authors.
Funding
Abstract
Various databases have harnessed the wealth of publicly available microarray data to address biological questions ranging from across-tissue differential expression to homologous gene expression. Despite their practical value, these databases rely on relative measures of expression and are unable to address the most fundamental question--which genes are expressed in a given cell type. The Gene Expression Barcode is the first database to provide reliable absolute measures of expression for most annotated genes for 131 human and 89 mouse tissue types, including diseased tissue. This is made possible by a novel algorithm that leverages information from the GEO and ArrayExpress public repositories to build statistical models that permit converting data from a single microarray into expressed/unexpressed calls for each gene. For selected platforms, users may upload data and obtain results in a matter of seconds. The raw data, curated annotation, and code used to create our resource are also available at http://rafalab.jhsph.edu/barcode.
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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.