Retroviral integration sites (RIS) mark cis -regulatory elements

Abstract Transcription in multicellular eukaryotic organisms involves an elaborate orchestration of the core promoter and cis -regulatory elements to drive spatiotemporally and quantitatively correct gene expression. Unlike promoters found immediately upstream of protein-coding genes, the positions...

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Published inCritical reviews in oncology/hematology Vol. 71; no. 1; pp. 1 - 11
Main Authors Ng, Cherry Ee Lin, Ito, Yoshiaki, Osato, Motomi
Format Journal Article
LanguageEnglish
Published Shannon Elsevier Ireland Ltd 01.07.2009
Elsevier
Subjects
Biological and medical sciences
Enhancer
Gene therapy
Genes, Viral
Hematologic and hematopoietic diseases
Hematology, Oncology and Palliative Medicine
Hox
Medical sciences
Pu.1
Regulatory Sequences, Nucleic Acid
Retroviral insertional mutagenesis
Retroviridae - genetics
Runx
Wnt-1
Hox
Enhancer
Retroviral insertional mutagenesis
Runx
Gene therapy
Wnt-1
Pu.1
Integration
Retroviridae
Virus
Cancerology
Transcription factor PU.1
Treatment
Insertion mutation
Regulatory sequence
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Abstract Abstract Transcription in multicellular eukaryotic organisms involves an elaborate orchestration of the core promoter and cis -regulatory elements to drive spatiotemporally and quantitatively correct gene expression. Unlike promoters found immediately upstream of protein-coding genes, the positions of distally located cis -regulatory elements relative to a gene of interest are difficult to define. As such, the identification and characterization of these regulatory elements has proved to be challenging. To this end, we propose a combinatorial in silico approach involving retroviral integration sites (RIS) mapping together with predicted matrix attachment regions (MARs) mapping and an already well-established comparative genomics approach, to enhance the prediction of potential cis -regulatory elements. Predicted elements can be validated by further investigations to ascertain their functions. In view of the abundance of electronically available RIS information, RIS mapping has an unrealized potential to aid in the discovery of novel cis -regulatory elements.
AbstractList Transcription in multicellular eukaryotic organisms involves an elaborate orchestration of the core promoter and cis-regulatory elements to drive spatiotemporally and quantitatively correct gene expression. Unlike promoters found immediately upstream of protein-coding genes, the positions of distally located cis-regulatory elements relative to a gene of interest are difficult to define. As such, the identification and characterization of these regulatory elements has proved to be challenging. To this end, we propose a combinatorial in silico approach involving retroviral integration sites (RIS) mapping together with predicted matrix attachment regions (MARs) mapping and an already well-established comparative genomics approach, to enhance the prediction of potential cis-regulatory elements. Predicted elements can be validated by further investigations to ascertain their functions. In view of the abundance of electronically available RIS information, RIS mapping has an unrealized potential to aid in the discovery of novel cis-regulatory elements.
Abstract Transcription in multicellular eukaryotic organisms involves an elaborate orchestration of the core promoter and cis -regulatory elements to drive spatiotemporally and quantitatively correct gene expression. Unlike promoters found immediately upstream of protein-coding genes, the positions of distally located cis -regulatory elements relative to a gene of interest are difficult to define. As such, the identification and characterization of these regulatory elements has proved to be challenging. To this end, we propose a combinatorial in silico approach involving retroviral integration sites (RIS) mapping together with predicted matrix attachment regions (MARs) mapping and an already well-established comparative genomics approach, to enhance the prediction of potential cis -regulatory elements. Predicted elements can be validated by further investigations to ascertain their functions. In view of the abundance of electronically available RIS information, RIS mapping has an unrealized potential to aid in the discovery of novel cis -regulatory elements.
Transcription in multicellular eukaryotic organisms involves an elaborate orchestration of the core promoter and cis-regulatory elements to drive spatiotemporally and quantitatively correct gene expression. Unlike promoters found immediately upstream of protein-coding genes, the positions of distally located cis-regulatory elements relative to a gene of interest are difficult to define. As such, the identification and characterization of these regulatory elements has proved to be challenging. To this end, we propose a combinatorial in silico approach involving retroviral integration sites (RIS) mapping together with predicted matrix attachment regions (MARs) mapping and an already well-established comparative genomics approach, to enhance the prediction of potential cis-regulatory elements. Predicted elements can be validated by further investigations to ascertain their functions. In view of the abundance of electronically available RIS information, RIS mapping has an unrealized potential to aid in the discovery of novel cis-regulatory elements.
Author Ng, Cherry Ee Lin
Ito, Yoshiaki
Osato, Motomi
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Issue 1
Keywords Hox
Enhancer
Retroviral insertional mutagenesis
Runx
Gene therapy
Wnt-1
Pu.1
Integration
Retroviridae
Virus
Cancerology
Transcription factor PU.1
Treatment
Insertion mutation
Regulatory sequence
Language English
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Snippet Abstract Transcription in multicellular eukaryotic organisms involves an elaborate orchestration of the core promoter and cis -regulatory elements to drive...
Transcription in multicellular eukaryotic organisms involves an elaborate orchestration of the core promoter and cis-regulatory elements to drive...
Transcription in multicellular eukaryotic organisms involves an elaborate orchestration of the core promoter and cis-regulatory elements to drive...
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SubjectTerms Biological and medical sciences
Enhancer
Gene therapy
Genes, Viral
Hematologic and hematopoietic diseases
Hematology, Oncology and Palliative Medicine
Hox
Medical sciences
Pu.1
Regulatory Sequences, Nucleic Acid
Retroviral insertional mutagenesis
Retroviridae - genetics
Runx
Wnt-1
Title Retroviral integration sites (RIS) mark cis -regulatory elements
URI https://www.clinicalkey.es/playcontent/1-s2.0-S1040842808002564
https://dx.doi.org/10.1016/j.critrevonc.2008.10.008
https://www.ncbi.nlm.nih.gov/pubmed/19046899
https://search.proquest.com/docview/67320463
Volume 71
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