HOXA13 Cut & Run of Human Melanoma Cells

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UID: 11077

Author(s): Weiss, Joshua M.*, Baggiolini, Arianna*, Koche, Richard Patrick*, White, Richard Mark* * MSK affiliated

Description: Summary from GEO:

"The goal of the experiment was to determine HOXA13 binding loci in human melanoma cells to infer downstream targets of a HOXA13 positional program."

Overall design from GEO:

"We performed Cut&Run for the melanoma cell lines SKME-1088, SKMEL-1176, and SKME-1206. For Cut&Run we used 100’000 cells per condition and it was performed as described in110. We used antibodies against HOXA13 (Invitrogen, #PA5-76440, 1:100), H3K27ac (Active Motiv, #39034, 1:100), IgG (abcam, #ab6709, 1:100) and we added a “no antibody” condition as additional negative control."

Subject of Study

Subject(s)

OncoTree Cancer Type(s)

Melanoma

Access via GEO

Accession #: GSE181768

Access via BioProject

Accession #: PRJNA753322

Access via SRA

Accession #: SRP331857
Access Restrictions: Free to All
Access Instructions: The NCBI Gene Expression Omnibus, BioProject, and SRA databases provide open access to these files
Associated Publications: Weiss J, Hunter M, Cruz N, et al. Anatomic position determines oncogenic specificity in melanoma. Nature. 2022; 604(7905):354-361.
Equipment Used: Illumina HiSeq 2500
High throughput sequencing system
Dataset Format(s): TAR, TXT, BW
Dataset Size: 3.8 GB (TAR), 3.7 MB (TXT)

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