|
| Status |
Public on Sep 03, 2019 |
| Title |
5_WTB1_ChIP_S5_Nov09 |
| Sample type |
SRA |
| |
|
| Source name |
Cells grown in SPP liquid media
|
| Organism |
Tetrahymena thermophila |
| Characteristics |
strain: B2086
developmental stage: vegetative growth
chip antibody: ANTI-FLAG M2 Affinity Gel (Sigma) A2220
|
| Growth protocol |
30C; 100rpm; SPP liquid media
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysates were clarified from sonicated nuclei and incubated with ANTI-FLAG® M2 Affinity Gel (Sigma)
Illumina's TruSeq ChIP Sample Preparation Kit (cat# IP-202-1012)
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
FINAL.table.6_WT1_Input_S6_R1_001-5_WTB1_ChIP_S5_R1_001--SORTED
tableIGR--FINAL.table.6_WT1_Input_S6_R1_001-5_WTB1_ChIP_S5_R1_001_INPUTs-IPs_20190119-200456
|
| Data processing |
ChIP-seq reads were assessed for quality using fastqc
ChIP-Seq reads were aligned using BWA and SAMtools
RACS: Reads calling from the genetic and intergenic regions were respectively counted and extracted
Genome_build: T_thermophila_June2014_assembly.fasta (http://ciliate.org/index.php/home/downloads)
Supplementary_files_format_and_content: csv files containing reads were generated using RACS
|
| |
|
| Submission date |
Jan 24, 2019 |
| Last update date |
Sep 03, 2019 |
| Contact name |
Alejandro Saettone |
| E-mail(s) |
alejandro.saettonechipana@sickkids.ca
|
| Organization name |
The Hospital for Sick Children
|
| Department |
Genetics & Genome Biology
|
| Lab |
Campos Lab
|
| Street address |
686 Bay Street
|
| City |
Toronto |
| State/province |
Ontario |
| ZIP/Postal code |
M5G0A4 |
| Country |
Canada |
| |
|
| Platform ID |
GPL23968 |
| Series (1) |
| GSE125576 |
RACS: Rapid Analysis of ChIP-Seq data for contig based genomes |
|
| Relations |
| BioSample |
SAMN10805245 |
| SRA |
SRX5286846 |
