ArticleBMC systems biology2010
In vitro gene regulatory networks predict in vivo function of liver.
Article in BMC systems biology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers, 1 of them a synthesis 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.
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.
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Who cites it
14 citing papers in PubMed, 1 synthesis or guideline pooled it, 32 citations in OpenAlex.
- Systematic transcriptome-wide meta-analysis across endocrine disrupting chemicals reveals shared and unique liver pathways, gene networks, and disease associations.Environment international · 2024Pooled it
- Lead-induced Hepatotoxicity in Rat Hepatocytes: a Transcriptomic Network Analysis Reveals Key Molecular Insights.Biological trace element research · 2026Article
- Cell type heterogeneity in gene co-expression networks: implications for toxicological research.Briefings in bioinformatics · 2025Review
- Unveiling the Hub Genes Involved in Cadmium-Induced Hepatotoxicity.Biological trace element research · 2025Article
- Signaling Pathways and Genes Associated with Hexavalent Chromium-Induced Hepatotoxicity.Biological trace element research · 2023Article
- Effects of Sodium Chromate Exposure on Gene Expression Profiles of Primary Rat Hepatocytes (In Vitro).Biological trace element research · 2023Article
- Developments in toxicogenomics: understanding and predicting compound-induced toxicity from gene expression data.Molecular omics · 2018Review
- Prediction of developmental chemical toxicity based on gene networks of human embryonic stem cells.Nucleic acids research · 2016Article
- Integrative microRNA and gene profiling data analysis reveals novel biomarkers and mechanisms for lung cancer.Oncotarget · 2016Article
- Large differences in global transcriptional regulatory programs of normal and tumor colon cells.BMC cancer · 2014Article
- Identification of biomarkers that distinguish chemical contaminants based on gene expression profiles.BMC genomics · 2014Article
- MicroRNA and messenger RNA profiling reveals new biomarkers and mechanisms for RDX induced neurotoxicity.BMC genomics · 2014Article
- Bcl10 links saturated fat overnutrition with hepatocellular NF-kB activation and insulin resistance.Cell reports · 2012Article
- New perspectives for in vitro risk assessment of multiwalled carbon nanotubes: application of coculture and bioinformatics.Journal of toxicology and environmental health. Part B, Critical reviews · 2012Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundEvolution of toxicity testing is predicated upon using in vitro cell based systems to rapidly screen and predict how a chemical might cause toxicity to an organ in vivo. However, the degree to which we can extend in vitro results to in vivo activity and possible mechanisms of action remains to be fully addressed.
resultsHere we use the nitroaromatic 2,4,6-trinitrotoluene (TNT) as a model chemical to compare and determine how we might extrapolate from in vitro data to in vivo effects. We found 341 transcripts differentially expressed in common among in vitro and in vivo assays in response to TNT. The major functional term corresponding to these transcripts was cell cycle. Similarly modulated common pathways were identified between in vitro and in vivo. Furthermore, we uncovered the conserved common transcriptional gene regulatory networks between in vitro and in vivo cellular liver systems that responded to TNT exposure, which mainly contain 2 subnetwork modules: PTTG1 and PIR centered networks. Interestingly, all 7 genes in the PTTG1 module were involved in cell cycle and downregulated by TNT both in vitro and in vivo.
conclusionsThe results of our investigation of TNT effects on gene expression in liver suggest that gene regulatory networks obtained from an in vitro system can predict in vivo function and mechanisms. Inhibiting PTTG1 and its targeted cell cycle related genes could be key mechanism for TNT induced liver toxicity.
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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.