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| Status |
Public on Jun 01, 2020 |
| Title |
Restoration of KMT2C in human colorectal cancer cell lines HCT116 and RKO reinforces genome wide H3K4me1 profiles |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
The histone 3 lysine 4 (H3K4) monomethylase KMT2C is mutated across several cancer types, however the effects of mutations on epigenome organization, gene expression and cell growth are not clear. To study effects of KMT2C expression in CRC cells we restored one allele to wild type KMT2C in the two CRC cell lines RKO and HCT116, which both are homozygous KMT2C c.8390delA mutant. Chromatin was analysed by ChIP-sequencing using the Diagenode iDeal ChIP-seq kit for Histones and the H3K4me1 specific antibody (Abcam ab8895).
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| Overall design |
DNA from reverse cross-linked chromatin input and H3K4me1 purified chromatin was quantified with the Qubit dsDNA assay kit. 10ng of DNA was used for high throughput sequencing. Parental RKO cells, one RKO KMT2C knock-in cell line, parental HCT116 cells and two HCT116 KMT2C knock-in cell lines were analyzed.
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| Contributor(s) |
Cordeddu L, Siggens L, Ekwall K |
| Citation(s) |
32471474 |
| |
| Submission date |
May 24, 2019 |
| Last update date |
Jun 03, 2020 |
| Contact name |
Chatarina Larsson |
| Organization name |
Uppsala University
|
| Department |
Immunology, Genetics and Pathology
|
| Street address |
Rudbeck Laboratory
|
| City |
Uppsala |
| ZIP/Postal code |
SE-751 85 |
| Country |
Sweden |
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| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
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| Samples (5)
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| Relations |
| BioProject |
PRJNA544691 |
| SRA |
SRP199443 |
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