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| Status |
Public on Feb 01, 2023 |
| Title |
Bsu_lacZ_0IPTG_1_BaM_seq |
| Sample type |
SRA |
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| Source name |
bacteria
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| Organism |
Bacillus subtilis |
| Characteristics |
genotype: {delta}}amyE::pSpankHy-lacZ
growth condition: LB
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| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted and gDNA depleted using RNeasy Plus mini kit (Qiagen) following manufacturer’s instructions
Libraries were generated using custom BaM-seq protocol described herein.
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
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| Data processing |
RNA sequencing reads were processed by removing poly(A) tails with cutadapt (options -a AAAAAAAAAAAAAAAAAAAA;min_overlap=10)
mapped using Bowtie (options -v 2 -k 1 --best)
Assembly: NC_000964.3, NC_000913.3
Supplementary files format and content: wig files generated using custom scripts
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| Submission date |
Jun 18, 2022 |
| Last update date |
Feb 23, 2023 |
| Contact name |
Gene-Wei Li |
| Organization name |
Massachusetts Institute of Technology
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| Department |
Biology
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| Street address |
77 Massachusetts Ave.
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| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02139 |
| Country |
USA |
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| Platform ID |
GPL24109 |
| Series (2) |
| GSE206423 |
BaM-seq and TBaM-seq, highly multiplexed and targeted RNA-seq protocols for rapid, low-cost library generation from bacterial samples [BaM-seq] |
| GSE206425 |
OnePot-seq and OPT-seq, highly multiplexed and targeted RNA-seq protocols for rapid, low-cost library generation |
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| Relations |
| BioSample |
SAMN29199284 |
| SRA |
SRX15790746 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM6253518_Bsu_lacZ_0IPTG_1_onepot.wig-5-f.bowtie_txt-5-f.wig.gz |
498.8 Kb |
(ftp)(http) |
WIG |
| GSM6253518_Bsu_lacZ_0IPTG_1_onepot.wig-5-r.bowtie_txt-5-r.wig.gz |
344.6 Kb |
(ftp)(http) |
WIG |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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