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Series GSE249459 Query DataSets for GSE249459
Status Public on Apr 24, 2024
Title Cancer-stromal cell interactions in breast cancer brain metastases induce glycocalyx-mediated resistance to HER2-targeting therapies [ATAC-seq]
Organism Homo sapiens
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary In a 3D coculture with stroma cells derived from breast cancer patients’ brain metastasis, HER2+ breast cancer cells were protected from HER2-targeted therapies, particularly the EGFR/HER2 small molecule inhibitor neratinib. To get insight into how this protection arises, ATAC-seq on coculture cells with or without neratinib as performed.
 
Overall design ATAC-seq of sorted cancer cells from a coculture with brain stromal cells or in monoculture, with or without neratinib
 
Contributor(s) Polyak K, Goyette M, Stevens L
Citation(s) 38709925
NIH grant(s)
Grant ID Grant title Affiliation Name
P50 CA168504 Dana-Farber/Harvard Cancer Center SPORE in Breast Cancer DANA-FARBER CANCER INSTITUTE Kornelia Polyak
R35 CA197623 Targeting intratumor heterogeneity in breast cancer DANA-FARBER CANCER INSTITUTE Kornelia Polyak
R01 CA200423 Chemical Glycoproteomics STANFORD UNIVERSITY Carolyn Bertozzi
T32 CA236754 Cancer Chemical Biology and Metabolism Training Program DANA-FARBER CANCER INSTITUTE Nika N Danial
Submission date Dec 06, 2023
Last update date May 31, 2024
Contact name Kornelia Polyak
E-mail(s) kornelia_polyak@dfci.harvard.edu
Phone 617-632-2106
Organization name Dana-Farber Cancer Institute
Department Medical Oncology
Lab Polyak
Street address 450 Brookline Ave
City Boston
State/province MA
ZIP/Postal code 02215
Country USA
 
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (24)
GSM7948478 453_DMSO_1 (ATAC-seq)
GSM7948479 453_DMSO_2 (ATAC-seq)
GSM7948480 453_NER_1 (ATAC-seq)
This SubSeries is part of SuperSeries:
GSE249574 Cancer-stromal cell interactions in breast cancer brain metastases induce glycocalyx-mediated resistance to HER2-targeting therapies
Relations
BioProject PRJNA1049323

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Supplementary file Size Download File type/resource
GSE249459_RAW.tar 3.9 Gb (http)(custom) TAR (of BW)
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Raw data are available in SRA

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