Systematic Evaluation of Somatic Cis-Regulatory Mutations in Follicular Lymphoma

Conference paper

Firat U., Bewicke-Copley, F., Anene, C., Schlesner, M., Icgc MMML-Seq Project3, Siebert, R., Okosun, J., Fitzgibbon, J. and Wang, J (2020). Systematic Evaluation of Somatic Cis-Regulatory Mutations in Follicular Lymphoma. American Society of Hematology. https://doi.org/10.1182/blood-2020-142623
AuthorsFirat U., Bewicke-Copley, F., Anene, C., Schlesner, M., Icgc MMML-Seq Project3, Siebert, R., Okosun, J., Fitzgibbon, J. and Wang, J
TypeConference paper
Abstract

Follicular lymphoma (FL) is an incurable indolent B cell malignancy characterized in the majority of cases by the t(14;18) translocation. While the mutational landscape of the coding genome is nearing completion, less is known about the characteristics of its noncoding genome. Our expectation is that the distribution of noncoding mutations will be non-random, determined by epigenomics features, such as chromatin modification and accessibility. Our strategy is therefore to integrate whole genome epigenomic marks and mutations in order to enrich for variants with regulatory potential and identify unique mutational processes specific to thesecis-regulatory elements (CREs).Allele-specific expression (ASE) patterns allow further refinement to resolve functional CREs and bona fide mutations associated with changes in gene expression.

Year2020
PublisherAmerican Society of Hematology
Journal citation136 (Supplement 1)
ISSN0006-4971
Digital Object Identifier (DOI)https://doi.org/10.1182/blood-2020-142623
Web address (URL)https://ashpublications.org/blood/article/136/Supplement%201/26/472598/Systematic-Evaluation-of-Somatic-Cis-Regulatory
Accepted author manuscript
License
File Access Level
Open
Publication dates
Print20 Nov 2020
Publication process dates
Deposited30 Jun 2022
Additional information

This research was originally published in Blood. Firat Uyulur, MSc, Findlay Bewicke-Copley, PhD MSc, BSc, Chinedu Anthony Anene, PhD, Matthias Schlesner, PhD, Icgc MMML-Seq Project, Reiner Siebert, Prof. Dr. MD, Jessica Okosun, MD PhD, Jude Fitzgibbon, PhD, Jun Wang, PhD. Systematic Evaluation of Somatic Cis-Regulatory Mutations in Follicular Lymphoma. Blood. 2020;Vol:136, Supplement 1. © the American Society of Hematology

Permalink -

https://openresearch.lsbu.ac.uk/item/8zyq8

Download files

Accepted author manuscript
Uyulur, F., Bewicke-Copley, F., Anene, C.A., Schlesner, M., Icgc, M.M.M.L., Siebert, R., Okosun, J., Fitzgibbon, J. and Wang, J., 2020.docx
License: CC BY-NC 4.0
File access level: Open

  • 101
    total views
  • 26
    total downloads
  • 4
    views this month
  • 1
    downloads this month

Export as

Related outputs

Cumulative incidence and risk factors for cutaneous squamous-cell carcinoma metastases in organ transplant recipients: the SCOPE-ITSCC metastases study, a prospective multi-center study.
de Jong, E., Genders, R., Harwood, C.A, Green, A.C., Plasmeijer, E.I., Proby, C., Geissler, E., Ferrándiz-Pulido, C., Ducroux, E., Euvrard, S., Geusau, A., Jahn-Bassler, K., Borik-Heil, L., Rácz, E., Nägeli, M., Hofbauer, G.F., Piaserico, S., Russo, I., Mackintosh, L., Borges-Costa, J., Angeliki-Gkini, M., Zavattaro, E., Savoia, P., Imko-Walszuk, B., Dębska-Slizień, A., Garmyn, M., van Kelst, S., Ricar, J., Cetkovska, P., Matin, R., Güleç, A.T., Seçkin, D., Anene, C.A., Oliveira, W.R.P., Rademaker, M., Goeman, J., van Geloven, N., Ruiz, E., Murad, F., Karn, E., Schmults, C.D. and Bouwes Bavinck, J.N. (2024). Cumulative incidence and risk factors for cutaneous squamous-cell carcinoma metastases in organ transplant recipients: the SCOPE-ITSCC metastases study, a prospective multi-center study. Journal of the American Academy of Dermatology. https://doi.org/10.1016/j.jaad.2024.01.040
Transcriptomic analysis of cutaneous squamous cell carcinoma reveals a multi-gene prognostic signature associated with metastasis.
Wang J, Harwood CA, Bailey E, Bewicke-Copley F, Anene, C., Thomson J, Qamar MJ, Laban R, Nourse C, Schoenherr C, Treanor-Taylor M, Healy E, Lai C, Craig P, Moyes C, Rickaby W, Martin J, Proby C, Inman GJ and Leigh IM (2023). Transcriptomic analysis of cutaneous squamous cell carcinoma reveals a multi-gene prognostic signature associated with metastasis. Journal of the American Academy of Dermatology. 89 (6), pp. 1159-1166. https://doi.org/10.1016/j.jaad.2023.08.012
Decosus: An R Framework for Universal Integration of Cell Proportion Estimation Methods.
Anene, C.A., Taggart, E., Harwood, C., Pennington, D.J. and Wang, J. (2022). Decosus: An R Framework for Universal Integration of Cell Proportion Estimation Methods. Frontiers in genetics. 13, p. 802838. https://doi.org/10.3389/fgene.2022.802838
Dysregulation of the miR-30c/DLL4 axis by circHIPK3 is essential for KSHV lytic replication
Harper, K.L., Mottram, T.J., Anene, C., Foster, B., Patterson, M.R., McDonnell, E., Macdonald, A., Westhead, D. and Whitehouse, A. (2022). Dysregulation of the miR-30c/DLL4 axis by circHIPK3 is essential for KSHV lytic replication. EMBO Reports. (e54117). https://doi.org/10.15252/embr.202154117
The Genomic Landscape of Actinic Keratosis
Thomson, J., Bewicke-Copley, F., Anene, C., Gulati, A., Nagano, A., Purdie, K., Inman, G.J., Proby, C.M., Leigh, I.M., Harwood, C.A. and Wang, J. (2021). The Genomic Landscape of Actinic Keratosis. The Journal of Investigative Dermatology. https://doi.org/10.1016/j.jid.2020.12.024
ACSNI: An unsupervised machine-learning tool for prediction of tissue-specific pathway components using gene expression profiles
Anene, C., Khan F., Bewicke-Copley, F., Maniati, E. and Wang, J. (2021). ACSNI: An unsupervised machine-learning tool for prediction of tissue-specific pathway components using gene expression profiles. Patterns. 2 (6), p. 100270. https://doi.org/10.1016/j.patter.2021.100270
SFPQ promotes an oncogenic transcriptomic state in melanoma
Bi, O., Anene, C., Nsengimana, J., Roberts, W., Newton-Bishop, J. and Boyne, J.R. (2021). SFPQ promotes an oncogenic transcriptomic state in melanoma. Oncogene. 40, pp. 5192-5203. https://doi.org/10.1038/s41388-021-01912-4
The role of CAF derived exosomal microRNAs in the tumour microenvironment of melanoma
Shelton, M., Anene, C., Nsengimana, J., Roberts, W., Newton-Bishop, J. and Boyne, J.R. (2020). The role of CAF derived exosomal microRNAs in the tumour microenvironment of melanoma. Biochimica et Biophysica Acta (BBA) - Reviews on Cancer. 1875 (1), p. 188456. https://doi.org/10.1016/j.bbcan.2020.188456
Merkel cell polyomavirus small tumour antigen activates the p38 MAPK pathway to enhance cellular motility
Dobson, S.J., Anene, C., Boyne, J.R., Mankouri, J., Macdonald, A. and Whitehouse, A (2020). Merkel cell polyomavirus small tumour antigen activates the p38 MAPK pathway to enhance cellular motility. Biochemical Journal. 477 (14), pp. 2721-2733. https://doi.org/10.1042/BCJ20200399
Platelet microparticle delivered microRNA-Let-7a promotes the angiogenic switch
Anene, C., Graham, A.M., Boyne, J. and Roberts, W. (2018). Platelet microparticle delivered microRNA-Let-7a promotes the angiogenic switch. Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease. https://doi.org/10.1016/j.bbadis.2018.04.013
Platelet induced hepatocellular carcinoma HEPG2 cell proliferation and angiogenic potential is integrin IIb3 dependent.
Rashed, Al-Hammad, Anene, C., Graham, A.M. and Roberts, W. (2015). Platelet induced hepatocellular carcinoma HEPG2 cell proliferation and angiogenic potential is integrin IIb3 dependent. Taylor & Francis. https://doi.org/10.3109/09537104.2015.1115703