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Subtype and cell ty...
Subtype and cell type specific expression of lncRNAs provide insight into breast cancer
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- Bjørklund, Sunniva Stordal (författare)
- Oslo university hospital,Norwegian Radium Hospital
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- Aure, Miriam Ragle (författare)
- Norwegian Radium Hospital,Oslo university hospital
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- Häkkinen, Jari (författare)
- Lund University,Lunds universitet,Bröstcancer-genetik,Sektion I,Institutionen för kliniska vetenskaper, Lund,Medicinska fakulteten,LUCC: Lunds universitets cancercentrum,Övriga starka forskningsmiljöer,Breastcancer-genetics,Section I,Department of Clinical Sciences, Lund,Faculty of Medicine,LUCC: Lund University Cancer Centre,Other Strong Research Environments
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- Vallon-Christersson, Johan (författare)
- Lund University,Lunds universitet,Bröstcancer-genetik,Sektion I,Institutionen för kliniska vetenskaper, Lund,Medicinska fakulteten,LUCC: Lunds universitets cancercentrum,Övriga starka forskningsmiljöer,Breastcancer-genetics,Section I,Department of Clinical Sciences, Lund,Faculty of Medicine,LUCC: Lund University Cancer Centre,Other Strong Research Environments
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- Kumar, Surendra (författare)
- Memorial University of Newfoundland,Norwegian Radium Hospital
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- Evensen, Katrine Bull (författare)
- Norwegian Radium Hospital
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- Fleischer, Thomas (författare)
- Norwegian Radium Hospital
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- Tost, Jörg (författare)
- University of Paris-Saclay
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- Sahlberg, Kristine K. (författare)
- Oslo university hospital,Norwegian Radium Hospital
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- Mathelier, Anthony (författare)
- University of Oslo,Oslo university hospital
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- Bhanot, Gyan (författare)
- Rutgers University: The State University of New Jersey,Rutgers Cancer Institute of New Jersey
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- Ganesan, Shridar (författare)
- Rutgers Cancer Institute of New Jersey
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- Tekpli, Xavier (författare)
- Oslo university hospital,Norwegian Radium Hospital
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- Kristensen, Vessela N. (författare)
- Oslo university hospital,University of Oslo
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(creator_code:org_t)
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- 2022-08-18
- 2022
- Engelska.
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Ingår i: Communications Biology. - : Springer Science and Business Media LLC. - 2399-3642. ; 5:1
- Relaterad länk:
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http://dx.doi.org/10... (free)
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https://lup.lub.lu.s...
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https://doi.org/10.1...
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Abstract
Ämnesord
Stäng
- Long non-coding RNAs (lncRNAs) are involved in breast cancer pathogenesis through chromatin remodeling, transcriptional and post-transcriptional gene regulation. We report robust associations between lncRNA expression and breast cancer clinicopathological features in two population-based cohorts: SCAN-B and TCGA. Using co-expression analysis of lncRNAs with protein coding genes, we discovered three distinct clusters of lncRNAs. In silico cell type deconvolution coupled with single-cell RNA-seq analyses revealed that these three clusters were driven by cell type specific expression of lncRNAs. In one cluster lncRNAs were expressed by cancer cells and were mostly associated with the estrogen signaling pathways. In the two other clusters, lncRNAs were expressed either by immune cells or fibroblasts of the tumor microenvironment. To further investigate the cis-regulatory regions driving lncRNA expression in breast cancer, we identified subtype-specific transcription factor (TF) occupancy at lncRNA promoters. We also integrated lncRNA expression with DNA methylation data to identify long-range regulatory regions for lncRNA which were validated using ChiA-Pet-Pol2 loops. lncRNAs play an important role in shaping the gene regulatory landscape in breast cancer. We provide a detailed subtype and cell type-specific expression of lncRNA, which improves the understanding of underlying transcriptional regulation in breast cancer.
Ämnesord
- MEDICIN OCH HÄLSOVETENSKAP -- Klinisk medicin -- Cancer och onkologi (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Clinical Medicine -- Cancer and Oncology (hsv//eng)
- MEDICIN OCH HÄLSOVETENSKAP -- Medicinska och farmaceutiska grundvetenskaper -- Medicinsk genetik (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Basic Medicine -- Medical Genetics (hsv//eng)
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Bjørklund, Sunni ...
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Aure, Miriam Rag ...
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Häkkinen, Jari
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Vallon-Christers ...
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Kumar, Surendra
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Evensen, Katrine ...
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Fleischer, Thoma ...
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Tost, Jörg
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Sahlberg, Kristi ...
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Mathelier, Antho ...
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Bhanot, Gyan
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Ganesan, Shridar
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Tekpli, Xavier
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Kristensen, Vess ...
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