ArticleGenome biology2014
Classifying leukemia types with chromatin conformation data.
Article in Genome biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed, 33 citations in OpenAlex.
- A conservedRNA biology · 2023Article
- The retinoic acid receptor co-factor NRIP1 is uniquely upregulated and represents a therapeutic target in acute myeloid leukemia with chromosome 3q rearrangements.Haematologica · 2022Article
- Chromatin Conformation in Development and Disease.Frontiers in cell and developmental biology · 2021Review
- Characterization of GJB2 cis-regulatory elements in the DFNB1 locus.Human genetics · 2019Article
- Novel long-range regulatory mechanisms controlling PKD2 gene expression.BMC genomics · 2018Article
- Alterations of specific chromatin conformation affect ATRA-induced leukemia cell differentiation.Cell death & disease · 2018Article
- Novel insights into chromosomal conformations in cancer.Molecular cancer · 2017Review
- Article
- Dynamic chromatin accessibility modeled by Markov process of randomly-moving molecules in the 3D genome.Nucleic acids research · 2017Article
- Chromosome conformation capture technologies and their impact in understanding genome function.Chromosoma · 2017Review
- Analysis of long-range interactions in primary human cells identifies cooperative CFTR regulatory elements.Nucleic acids research · 2016Article
- Spatial Organization of Epigenomes.Current molecular biology reports · 2016Article
- The three-dimensional cancer genome.Current opinion in genetics & development · 2016Review
- C-ing the Genome: A Compendium of Chromosome Conformation Capture Methods to Study Higher-Order Chromatin Organization.Journal of cellular physiology · 2016Review
- Chromatin interaction analysis reveals changes in small chromosome and telomere clustering between epithelial and breast cancer cells.Genome biology · 2015Article
- Structural heterogeneity and functional diversity of topologically associating domains in mammalian genomes.Nucleic acids research · 2015Article
- An Overview of Genome Organization and How We Got There: from FISH to Hi-C.Microbiology and molecular biology reviews : MMBR · 2015Review
Corrections and comments
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Authors and funding
7 authors at 1 institution in 1 country.
Funding
Abstract
backgroundAlthough genetic or epigenetic alterations have been shown to affect the three-dimensional organization of genomes, the utility of chromatin conformation in the classification of human disease has never been addressed.
resultsHere, we explore whether chromatin conformation can be used to classify human leukemia. We map the conformation of the HOXA gene cluster in a panel of cell lines with 5C chromosome conformation capture technology, and use the data to train and test a support vector machine classifier named 3D-SP. We show that 3D-SP is able to accurately distinguish leukemias expressing MLL-fusion proteins from those expressing only wild-type MLL, and that it can also classify leukemia subtypes according to MLL fusion partner, based solely on 5C data.
conclusionsOur study provides the first proof-of-principle demonstration that chromatin conformation contains the information value necessary for classification of leukemia subtypes.
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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.