|
| Status |
Public on Feb 18, 2016 |
| Title |
BSG1471_IP_Smc |
| Sample type |
SRA |
| |
|
| Source name |
Bacillus subtilis cells
|
| Organism |
Bacillus subtilis subsp. subtilis str. 168 |
| Characteristics |
genotype: smc (E1118Q) ftsY::ermB, delta-amyE::parS359::cat
chip antibody: anti-Smc
|
| Growth protocol |
Cells were grown in minimal medium at 37°C to mid exponential phase. Cells were treated with a formaldehyde-containing fixing solution, washed and lysed in the presence of protease inhibitors.
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysed cells were sonicated and cleared lysates were kept as the input samples. The IP samples were incubated with Protein G coupled dynabeads (Invitrogen), coupled to the respective antibodies (Smc, ParB or ScpB). DNA was purified by phenol chloroform extraction and ethanol precipitation.
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
ChIP using Smc antibody
1265_EM_processed.txt
|
| Data processing |
Genome mapping with Bowtie in Galaxy
Binning and normalization of total numbers of reads with SeqMonk software
Relative quantification of input and ChIP with SeqMonk software
Genome_build: NC_000964.3
Supplementary_files_format_and_content: tab-delimited text files including: Start/End basepairs of bins in the genome used for mapping; Corresponding Start/End basepairs of bins in the reference genome; Ratio of reads for IP/Input samples
|
| |
|
| Submission date |
Jan 19, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Stephan Gruber |
| E-mail(s) |
[email protected]
|
| Organization name |
Max Planck Institute of Biochemistry
|
| Street address |
Am Klopferspitz 18
|
| City |
Martinsried |
| ZIP/Postal code |
82152 |
| Country |
Germany |
| |
|
| Platform ID |
GPL21344 |
| Series (1) |
| GSE76949 |
Control of Smc Coiled Coil Architecture by the ATPase Heads Facilitates Targeting to Chromosomal ParB/parS and Release onto Flanking DNA |
|
| Relations |
| BioSample |
SAMN04420749 |
| SRA |
SRX1534064 |
