Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

56 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

WT vs KO mecA comparison

ABSTRACT: Transcriptional profiling of S. thermophilus LMD-9 wild-type compared to the isogenic mutant strain CB052 (deletion of mecA, STER_0216) for the identification of the MecA regulon. Cells were grown in THB medium supplemented with glucose 1% (THBG) and sampled at OD600 = 0.4 for mRNA extraction wild-type vs knockout, 2 WT biological replicates (one used as technical replicate for a dye swap), 2 KO biological replicates (one used as technical replicate for a dye swap)

ORGANISM(S): Streptococcus thermophilus

SUBMITTER: Pascal Hols

PROVIDER: E-GEOD-28371 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

WT vs KO comX comparison

Project description:Transcriptional profiling of S. thermophilus LMD-9 wild-type compared to the isogenic mutant strain CB003 (deletion of comX, STER_0189) for the identification of the ComX regulon. Cells were grown in CDM medium supplemented with lactose 1% (CDML) and sampled at OD600 = 0.4 for mRNA extraction wild-type vs knockout, 2 WT biological replicates (one used as technical replicate for a dye swap), 2 KO biological replicates (one used as technical replicate for a dye swap)

2012-01-31 | E-GEOD-28372 | biostudies-arrayexpress

KO comR vs. KO comX comparison

Project description:Transcriptional profiling of mutant Streptococcus thermophilus LMD-9 comR::lox72 (strain LF148) compared to mutant S. thermophilus LMD-9 DcomX (strain CB003) for the identification of the ComR regulon. Cells were grown in CDM medium supplemented with lactose 1% (CDML) and sampled at OD600 = 0.3~0.4 for mRNA extraction. 2 LF148 biological replicates (one used as a technical replicate for a dye swap), 2 CB003 biological replicates (one used as a technical replicate for a dye swap).

2014-02-15 | E-GEOD-35849 | biostudies-arrayexpress

WT vs WTmitomycinC comparison

Project description:Transcriptional profiling of S. thermophilus LMD-9 wild-type in the presence of mitomycin C. Cells were grown in CDM medium supplemented with lactose 1% (CDML), without or with mitomycin C 0.08 microg/ml, and sampled at OD600 = 0.4 for mRNA extraction. wild-type vs wild-type + mitomycin C, 2 WT biological replicates (one used as technical replicate for a dye swap), 2 WT + mitomycin C biological replicates (one used as technical replicate for a dye swap)

2013-01-31 | E-GEOD-35518 | biostudies-arrayexpress

WT vs KO hdiR comparison

Project description:Transcriptional profiling of S. thermophilus LMD-9 wild-type compared to the isogenic mutant strain CB0082 (deletion of hdiR, STER_0918) for the identification of the HdiR regulon. Cells were grown in CDM medium supplemented with lactose 1% (CDML) and sampled at OD600 = 0.4 for mRNA extraction wild-type vs knockout, 2 WT biological replicates (one used as technical replicate for a dye swap), 2 KO biological replicates (one used as technical replicate for a dye swap)

2013-01-31 | E-GEOD-35517 | biostudies-arrayexpress

The Solanum lycopersicum WRKY3 Transcription Factor Regulates Salt Stress Tolerance In Tomato

Project description:The tomato SlWRKY3 transcription factor was overexpressed in cultivated tomato (Solanum lycopersicum)and transgenic plants transcriptome was compared to that of wild-type plants. At least 4 plants were collected for RNA extraction. The aim of the experiment was to compare transcriptomes of 35::SlWRKY3 plants and wild-type plants grown together and on MS (Murashige and Skoog) medium in vitro for 4 weeks. A technical replicate (dye swap) was conducted.

2016-03-15 | E-GEOD-74504 | biostudies-arrayexpress

Bacillus subtilis W168, WT vs. uppS-RBS (A to C)

Project description:Transcriptional profile of the uppS-RBS (A to C) mutant during log growth phase in LB medium. Bacillus subtilis W168, WT vs. uppS-RBS (A to C). The experiment was conducted two times using three independent total RNA preparations (biological triplicates). Each comparison was performed in dye-swap with the same RNA preparation. For each paried comparison, one sample was labeled with Alexa Fluor 555 and the other was with Alexa Fluor 647.

2013-04-01 | E-GEOD-45305 | biostudies-arrayexpress

Transcriptomic study of the impact of iron toxicity on rice plant

Project description:transcriptomic study of the impact of iron toxicity on rice plant (Oryza sativa L.; cv M-bM-^@M-^XI Kong PaoM-bM-^@M-^Y ) after short term (3 days) or long term (3 weeks) exposure to ferrous iron (125 ppm). Twenty five days old rice seedlings were exposed to 0 or 125 mg/L ferrous iron for 3 days and 3 weeks in hydroponic culture. Comparison between control and iron stressed plants were done at the shoot and the root levels. The assays were replicated twice on two independent plant cultures. 8 samples, Two-condition experiment, control (0 ppm ferrous iron) vs. iron treated (125 ppm ferrous iron). Biological replicates: 2 replicates for comparison shoot 3 days of stress, root 3 days of stress, shoot 3 weeks of stress and root 3 weeks of stress.

2012-05-14 | E-GEOD-36299 | biostudies-arrayexpress

Bacillus subtilis W168, WT vs. sigA (G336C)

Project description:Transcriptional profile of the sigA (G336C) mutant during log growth phase in LB medium. Bacillus subtilis W168, WT vs. sigA (G336C). The experiment was conducted two times using three independent total RNA preparations (biological triplicates). Each comparison was performed in dye-swap with the same RNA preparation. For each paried comparison, one sample was labeled with Alexa Fluor 555 and the other was with Alexa Fluor 647.

2014-03-01 | E-GEOD-55202 | biostudies-arrayexpress

Reduction in membrane phosphatidylglycerol content leads to daptomycin resistance in Bacillus subtilis

Project description:Transcriptional response of Bacillus subtilis to daptomycin in wild-type and in a daptomycin resistant mutant. Bacillus subtilis 168, WT (-DAP) vs. DapR1 (-DAP), WT (+DAP) vs. DapR1 (+DAP), DapR1 (+DAP) vs. DapR1 (-DAP). Each experiment was conducted at least twice using two independent total RNA preparations. For daptomycin untreated comparison between 168 WT and DapR1 mutant, DapR1 was labeled with Alexa Fluor 647 and WT was labeled with Alexa Fluor 555. For daptomycin treated experiments between WT and DapR1, DapR1 was labeled with Alexa Fluor 647 and WT with Alexa Fluor 555. For treated vs. untreated DapR1, the DAP treated samples were labeled with Alexa Fluor 647 and the untreated with Alexa Fluor 555. For dye swap, untreated DapR1 was labeled with Alexa Fluor 647 and DAP treated with Alexa Fluor 555.

2011-06-16 | E-GEOD-30000 | biostudies-arrayexpress

Influence of osmopriming on rape seeds germination

Project description:Transcriptomic study of the impact of osmopriming on rape seeds (Brassica napus L.; cv 'Libomir') during priming process and after germination. The assays were replicated twice on two independent priming and germination experiments. Seeds were osmoprimed in PEG solution (-1.2 MPa osmotic potential) during 7 days, dried to initial moisture content and then germinated for 7 hours on water. The analysis during different phases of priming procedure (soaking and drying), after whole osmopriming process and germination were done. 10 samples, four condition experiment; non dried primed seeds (Pnd) vs. dry unprimed seeds (UPd) (PEG soaking), non dried primed seeds (Pnd) vs dry primed seeds (Pd) (drying after soaking), dry primed seeds (Pd) vs. dry unprimed seeds (UPd) (full osmopriming process), primed seeds imbibed on water (P7h) vs unprimed seeds imbibed on water (UP7h) (germination after osmopriming). Biological replicates: 2 replicates for comparison PEG soaking, drying after soaking, full osmopriming process and germination after osmopriming.

2014-11-23 | E-GEOD-61702 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data