dc.contributor.author |
Jacobson, Elsie C |
en |
dc.contributor.author |
Grand, Ralph S |
en |
dc.contributor.author |
Perry, Johanna |
en |
dc.contributor.author |
Vickers, Mark |
en |
dc.contributor.author |
Olins, Ada L |
en |
dc.contributor.author |
Olins, Donald E |
en |
dc.contributor.author |
O'Sullivan, Justin |
en |
dc.date.accessioned |
2020-05-14T04:45:09Z |
en |
dc.date.issued |
2020-01 |
en |
dc.identifier.issn |
0888-7543 |
en |
dc.identifier.uri |
http://hdl.handle.net/2292/50691 |
en |
dc.description.abstract |
Cancer cell lines often have large structural variants (SVs) that evolve over time. There are many reported differences in large scale SVs between HL-60 and HL-60/S4, two cell lines derived from the same acute myeloid leukemia sample. However, the stability and variability of inter- and intra-chromosomal structural variants between different sources of the same cell line is unknown. Here, we used Hi-C and RNA-seq to identify and compare large SVs in HL-60 and HL-60/S4 cell lines. Comparisons with previously published karyotypes identified novel SVs in both cell lines. Hi-C was used to characterize the known expansion centered on the MYC locus. The MYC expansion was integrated into known locations in HL-60/S4, and a novel location (chr4) in HL-60. The HL-60 cell line has more within-line structural variation than the HL-60/S4 derivative cell line. Collectively we demonstrate the usefulness of Hi-C and with RNA-seq data for the identification and characterization of SVs. |
en |
dc.format.medium |
Print-Electronic |
en |
dc.language |
eng |
en |
dc.relation.ispartofseries |
Genomics |
en |
dc.rights |
Items in ResearchSpace are protected by copyright, with all rights reserved, unless otherwise indicated. Previously published items are made available in accordance with the copyright policy of the publisher. |
en |
dc.rights.uri |
https://researchspace.auckland.ac.nz/docs/uoa-docs/rights.htm |
en |
dc.subject |
HL-60 Cells |
en |
dc.subject |
Chromosomes, Human |
en |
dc.subject |
Chromatin |
en |
dc.subject |
Humans |
en |
dc.subject |
Proto-Oncogene Proteins c-myc |
en |
dc.subject |
Gene Fusion |
en |
dc.subject |
Protein Biosynthesis |
en |
dc.subject |
Genome, Human |
en |
dc.subject |
Genetic Variation |
en |
dc.subject |
Karyotype |
en |
dc.subject |
RNA-Seq |
en |
dc.title |
Hi-C detects novel structural variants in HL-60 and HL-60/S4 cell lines. |
en |
dc.type |
Journal Article |
en |
dc.identifier.doi |
10.1016/j.ygeno.2019.05.009 |
en |
pubs.issue |
1 |
en |
pubs.begin-page |
151 |
en |
pubs.volume |
112 |
en |
dc.rights.holder |
Copyright: The author |
en |
pubs.end-page |
162 |
en |
pubs.publication-status |
Published |
en |
dc.rights.accessrights |
http://purl.org/eprint/accessRights/RestrictedAccess |
en |
pubs.subtype |
Research Support, Non-U.S. Gov't |
en |
pubs.subtype |
Journal Article |
en |
pubs.elements-id |
773777 |
en |
pubs.org-id |
Liggins Institute |
en |
dc.identifier.eissn |
1089-8646 |
en |
pubs.record-created-at-source-date |
2019-05-17 |
en |
pubs.dimensions-id |
31095996 |
en |