|
| Status |
Public on Jun 07, 2023 |
| Title |
16HBE14o- CFTRhigh #4 viewpoint_+48.9kb rep1 [4C-seq] |
| Sample type |
SRA |
| |
|
| Source name |
16HBE14o-
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: 16HBE14o-
cell type: human bronchial epithelial cells
genotype: CFTRhigh
|
| Growth protocol |
Cells were grown in DMEM + 10% FBS using standard methods
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Nuclei from 1e7 cells grown to confluency were made as per Krijger, P et al, 2020, Methods (PMID: 31351925).
All libraries were constructed with Illumina sequencing adapters as per PMID: 31351925.
|
| |
|
| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
NextSeq 550 |
| |
|
| Description |
4C-seq library with the CFTR +48.9 kb region as the viewpoint
|
| Data processing |
library strategy: 4C-seq
Libraries were sequenced on the Nextseq550 machine and demultiplexed using the primer sequences.
4C-seq was quantified and mapped using the pipe4C v1.1 (https://github.com/deLaatLab/pipe4C) processing pipeline using default parameters, aligned to the hg19 genome.
Assembly: hg19
Supplementary files format and content: Aligned 4C-seq of each sample of at a single viewpoint in bigWig format
|
| |
|
| Submission date |
Dec 13, 2022 |
| Last update date |
Jun 07, 2023 |
| Contact name |
Ann Harris |
| E-mail(s) |
axh575@case.edu
|
| Organization name |
Case Western Reserve University
|
| Department |
Genetics and Genome Sciences
|
| Street address |
2109 Adelbert Rd
|
| City |
Cleveland |
| State/province |
OH |
| ZIP/Postal code |
44106 |
| Country |
USA |
| |
|
| Platform ID |
GPL21697 |
| Series (2) |
| GSE220852 |
Cellular heterogeneity in the 16HBE14o- airway epithelial line impacts functional readouts [4C-seq] |
| GSE220855 |
Cellular heterogeneity in the 16HBE14o- airway epithelial line impacts functional readouts. |
|
| Relations |
| BioSample |
SAMN32192592 |
| SRA |
SRX18671769 |
