Histone modification profiling in breast cancer cell lines highlights commonalities and differences among subtypes
Version 2 2018-09-26, 05:14
Version 1 2018-02-20, 05:39
Posted on 2018-09-26 - 05:14
Abstract Background Epigenetic regulators are frequently mutated or aberrantly expressed in a variety of cancers, leading to altered transcription states that result in changes in cell identity, behavior, and response to therapy. Results To define alterations in epigenetic landscapes in breast cancers, we profiled the distributions of 8 key histone modifications by ChIP-Seq, as well as primary (GRO-seq) and steady state (RNA-Seq) transcriptomes, across 13 distinct cell lines that represent 5 molecular subtypes of breast cancer and immortalized human mammary epithelial cells. Discussion Using combinatorial patterns of distinct histone modification signals, we defined subtype-specific chromatin signatures to nominate potential biomarkers. This approach identified AFAP1-AS1 as a triple negative breast cancer-specific gene associated with cell proliferation and epithelial-mesenchymal-transition. In addition, our chromatin mapping data in basal TNBC cell lines are consistent with gene expression patterns in TCGA that indicate decreased activity of the androgen receptor pathway but increased activity of the vitamin D biosynthesis pathway. Conclusions Together, these datasets provide a comprehensive resource for histone modification profiles that define epigenetic landscapes and reveal key chromatin signatures in breast cancer cell line subtypes with potential to identify novel and actionable targets for treatment.
CITE THIS COLLECTION
DataCite
3 Biotech
3D Printing in Medicine
3D Research
3D-Printed Materials and Systems
4OR
AAPG Bulletin
AAPS Open
AAPS PharmSciTech
Abhandlungen aus dem Mathematischen Seminar der Universität Hamburg
ABI Technik (German)
Academic Medicine
Academic Pediatrics
Academic Psychiatry
Academic Questions
Academy of Management Discoveries
Academy of Management Journal
Academy of Management Learning and Education
Academy of Management Perspectives
Academy of Management Proceedings
Academy of Management Review
Xi, Yuanxin; Shi, Jiejun; Li, Wenqian; Tanaka, Kaori; Allton, Kendra; Richardson, Dana; et al. (2018). Histone modification profiling in breast cancer cell lines highlights commonalities and differences among subtypes. figshare. Collection. https://doi.org/10.6084/m9.figshare.c.4009867.v2
or
Select your citation style and then place your mouse over the citation text to select it.
SHARE
Usage metrics
Read the peer-reviewed publication
AUTHORS (20)
YX
Yuanxin Xi
JS
Jiejun Shi
WL
Wenqian Li
KT
Kaori Tanaka
KA
Kendra Allton
DR
Dana Richardson
JL
Jing Li
HF
Hector Franco
AN
Anusha Nagari
VM
Venkat Malladi
LC
Luis Coletta
MS
Melissa Simper
KK
Khandan Keyomarsi
JS
Jianjun Shen
MB
Mark Bedford
XS
Xiaobing Shi
MB
Michelle Barton
WK
W. Kraus
WL
Wei Li
SD
Sharon Dent