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CELSeq2-profiles for siRNA screening and daily timecourse for early reprogramming to pluripotency.

ABSTRACT: AIM: To find molecular signatures associated to the siRNA-mediated knockdowns in order to be able to identify similarities among different knockdowns. DESCRIPTION: Each sample includes biological triplicates for 35 siRNA-mediated knockdowns targeting 30 chromatin-associated proteins during in early reprogramming to iPS at day 6. A daily timecourse from reprogramming cells, without treatment from MEFs until day 6 is also included in triplicate.

ORGANISM(S): Mus musculus

PROVIDER: GSE118679 | GEO | 2019/03/14

REPOSITORIES: GEO

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Project description:Experiment 1 Gene profiling upon biotic stress treatment Biological question : What are the genes (incuding microRNA precursors) that are differentially regulated upon flg22 treatment? Experiment description : 14-day old seedlings (Col-0 and fls2 KO) treated with 10uM of flg22 (flagellin- derived peptide) over a one hour timecourse. Experiment 2 Gene profiling in microRNA mutants Biological question : What are the genes (including miRNA precursors) that are differentially regulated in a set of microRNA mutants? Experiment description : Ler, dcl1-9, hen1-1 and hasty were grown for 12-day on MS solid medium ,seedlings were then transferred in MS liquid medium and harvested 2 days after. Experiment 3 Gene profiling in siRNA mutants Biological question : What are the genes (including miRNA precursors) that are differentially regulated in a set of siRNA mutants? Experiment description : Col-0, dcl2-1, dcl3-1 and rdr2-1 were grown for 12-day on MS solid medium ,seedlings were then transferred in MS liquid medium and harvested 2 days after. Experiment 4 Gene profiling in Agrobacterium-induced tumors and auxin-induced calli. Biological question : What are the genes (including miRNA precursors) that are differentially regulated in an Agrobacterium-induced tumors compared to auxin-induced calli? Experiment description : Col-0 plants were infected with wt Agrobacterium tumefaciens (strain A208) by stabbing the emerging stems. 18 days later, growing tumors were harvested as were the non-infected part of the stabbed-stem.In parallel, Col-0 seeds were germinated on Callus Induction Media (CIM) and 18 days later, calli were harvested. Experiment 5 Gene profiling in tasiRNA mutants Biological question : What are the genes (including miRNA precursors) that are differentially regulated in a set of tasiRNA mutants? Experiment description : Col-0, dcl4-1, rdr6-1 were grown for 12-day on MS solid medium ,seedlings were then transferred in MS liquid medium and harvested 2 days after. Experiment 6 Gene profiling upon biotic stress treatment Biological question : What are the genes (incuding microRNA precursors) that are differentially regulated upon flg22 treatment? Experiment description : 14-day old seedlings (Col-0 and fls2 KO) treated with 10uM of flg22 (flagellin- derived peptide) over a one hour timecourse.

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CELSeq2-profiles for siRNA screening and daily timecourse for early reprogramming to pluripotency.

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