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| Status |
Public on Mar 04, 2019 |
| Title |
Path-seq identifies an essential mycolate remodeling program for mycobacterial adaptation in host cells [ChIP-seq] |
| Organism |
Mycolicibacterium smegmatis |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
Study of the DNA binding sites of the transcriptional regulator MSMEG_0916 through chromatin immunoprecipitation couple with deep sequenicng (ChIP-seq) and induced or uninduced overexpression of MSMEG_0916 in Mycobacterium smegmatis
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| Overall design |
Cultures of Mycobacterium smegmatis with pDTCF-MSMEG_0916 were grown in the presence or absence of anhydrotetracycline (ATc) for 4 hour and DNA-protein interactions were characterized by cross-linking 50 ml of culture with 1% formaldehyde for 30 min. Immunoprecipitated DNA was sequenced aligned with Bowtie2 and processed using the R package DuffyNGS.
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| |
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| Contributor(s) |
Peterson EJ, Baliga NS |
| Citation(s) |
30833303 |
| |
| Submission date |
Jun 20, 2018 |
| Last update date |
Jun 03, 2019 |
| Contact name |
Eliza Peterson |
| Organization name |
Institute for Systems Biology
|
| Lab |
Baliga
|
| Street address |
401 Terry Ave N
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98109 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL25202 |
Illumina NextSeq 500 (Mycolicibacterium smegmatis) |
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| Samples (2) |
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| This SubSeries is part of SuperSeries: |
| GSE116085 |
An essential mycolate remodeling program for mycobacterial adaptation in host cells |
|
| Relations |
| BioProject |
PRJNA476981 |
| SRA |
SRP151007 |
