Comment[GEAAccession]	E-GEAD-351
MAGE-TAB Version	1.1
Investigation Title	Expression Change after Fbl siRNA-depenent knockdown and inhibitors treatment
Experiment Description	Cell from E11 dorsal cortex were treated with con and Fbl siRNA for one day and expression change of genes was evaluated by RNA-seq.
Experimental Design	pathogenicity design	stimulus or stress design	genotyping design	replicate design
Experimental Factor Name	treatment
Experimental Factor Type	treatment
Person Last Name	wu
Person First Name	quan
Person Affiliation	RIKEN Center for Biosystems Dynamics Research
Person Roles	submitter
Public Release Date	2024-03-13
Protocol Name	P-GEAD-405	P-GEAD-406	P-GEAD-407	P-GEAD-408	P-GEAD-409
Protocol Type	sample collection protocol	nucleic acid extraction protocol	nucleic acid library construction protocol	nucleic acid sequencing protocol	normalization data transformation protocol
Protocol Description	Cortices were dissociated with 0.05% trypsin with Hanks Balanced Salt Solution (HBSS) (-) at 37degree_C for 10 min. After centrifugation at 1000g for 5 min, cells were re-suspended with 0.375% BSA/HBSS(-) by gentle pipetting 15 to 20 times. After treatment with siRNA or inhibitors, cells were directly retrieved from culture wells by addition of 350 microl lysis buffer.	Total RNA was extracted by RNeasy Mini Kits (Qiagen) and genomic DNA was removed by treated with DNase (Qiagen).	Library preparation for RNA-sequencing (RNA-seq) was performed using the TruSeq Stranded mRNA Library Prep Kit (Illumina) and 100-110 ng of total RNA.	Sequencing was performed in HiSeq1500 (Illumina) with the HiSeq SR Rapid Cluster Kit v2 (Illumina).	Normalization was performed with a R package TCC (Sun et al., 2013)
SDRF File	E-GEAD-351.sdrf.txt
Comment[AEExperimentType]	RNA-seq of coding RNA
Comment[BioProject]	PRJDB9278
Comment[Last Update Date]	2024-03-13