iCLIP of human brain and neuroblastoma sample to characterisethe RNA targets and position-dependent splicing regulation by TDP-43; implications for neurodegenerative diseases.
iCLIP of human brain and neuroblastoma sample to characterisethe RNA targets and position-dependent splicing regulation by TDP-43; implications for neurodegenerative diseases.
SHSY5Y cells were grown in 10 cm2 plates. iCLIP of TDP-43 proteins, RNA ligated to L3 linker, extracted and self-circularised. The final products were obtained by PCR with Illumina sequencing primers. Specific barcodes were used for each RT reaction, and are specified below for each sequencing run. Random barcodes are also incorperated to distinguish between PCR duplication and different cDNA products.
CRI
E-MTAB-530:iCLIP
Experimental Factor: CellLine
SH-SY5Y neuroblastoma cells
Experimental Factor: CellType
neuroblast
Experimental Factor: DiseaseState
neuroblastoma
Experimental Factor: Sex
female
Experimental Factor: CellType
embryonic stem cells
Experimental Factor: Sex
n/a
Experimental Factor: OrganismPart
brain
Experimental Factor: ClinicalHistory
cognitively normal
Experimental Factor: Sex
male
Experimental Factor: ClinicalHistory
frontotemporal lobar degeneration
Experimental Factor: CellLine
brain
Experimental Factor: CellType
male
Experimental Factor: DiseaseState
frontotemporal lobar degeneration