ArticleGenome biology2009
Chromatin conformation signatures of cellular differentiation.
Article in Genome biology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 64 papers.
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
64 citing papers in PubMed.
- Genomic diversity in functionally relevant genes modifies neurodevelopmental versus neoplastic risks in individuals with germline PTEN variants.NPJ genomic medicine · 2025Article
- Advancements and future directions in single-cell Hi-C based 3D chromatin modeling.Computational and structural biotechnology journal · 2024Review
- Chromosome structure modeling tools and their evaluation in bacteria.Briefings in bioinformatics · 2024Review
- The adapted Activity-By-Contact model for enhancer-gene assignment and its application to single-cell data.Bioinformatics (Oxford, England) · 2023Article
- Article
- Application of Hi-C and other omics data analysis in human cancer and cell differentiation research.Computational and structural biotechnology journal · 2021Review
- Computational approaches for inferring 3D conformations of chromatin from chromosome conformation capture data.Methods (San Diego, Calif.) · 2020Review
- GSDB: a database of 3D chromosome and genome structures reconstructed from Hi-C data.BMC molecular and cell biology · 2020Article
- Computational methods for predicting 3D genomic organization from high-resolution chromosome conformation capture data.Briefings in functional genomics · 2020Article
- Computing 3D Chromatin Configurations from Contact Probability Maps by Inverse Brownian Dynamics.Biophysical journal · 2020Article
- HIFI: estimating DNA-DNA interaction frequency from Hi-C data at restriction-fragment resolution.Genome biology · 2020Article
- MSTD: an efficient method for detecting multi-scale topological domains from symmetric and asymmetric 3D genomic maps.Nucleic acids research · 2019Article
- Genomic 3D compartments emerge from unfolding mitotic chromosomes.Chromosoma · 2019Article
- 2C-ChIP: measuring chromatin immunoprecipitation signal from defined genomic regions with deep sequencing.BMC genomics · 2019Article
- An Overview of Methods for Reconstructing 3-D Chromosome and Genome Structures from Hi-C Data.Biological procedures online · 2019Review
- Transcriptional and epigenomic landscapes of CNS and non-CNS vascular endothelial cells.eLife · 2018Article
- Reprogramming, oscillations and transdifferentiation in epigenetic landscapes.Scientific reports · 2018Article
- Reconstructing spatial organizations of chromosomes through manifold learning.Nucleic acids research · 2018Article
- Alterations of specific chromatin conformation affect ATRA-induced leukemia cell differentiation.Cell death & disease · 2018Article
- 3C and 3C-based techniques: the powerful tools for spatial genome organization deciphering.Molecular cytogenetics · 2018Review
4 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
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
One of the major genomics challenges is to better understand how correct gene expression is orchestrated. Recent studies have shown how spatial chromatin organization is critical in the regulation of gene expression. Here, we developed a suite of computer programs to identify chromatin conformation signatures with 5C technology http://Dostielab.biochem.mcgill.ca. We identified dynamic HoxA cluster chromatin conformation signatures associated with cellular differentiation. Genome-wide chromatin conformation signature identification might uniquely identify disease-associated states and represent an entirely novel class of human disease biomarkers.
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.