TraIT Cell Line use case - EGA European Genome-Phenome Archive

Dataset ID	Description	Technology	Samples
EGAD00001001626	RNA-Seq Illumina GAII dataset for the TraIT cell-line use case (added reverse and forward reads).	Illumina Genome Analyzer II	6
EGAD00001002069	Complete genomics data for VCaP and PC346c.		2
EGAD00001002071	qDNAseq shallow sequencing dataset of the cell line use case.		5
EGAD00001002109	TSACP TruSeq Amplicon Panel dataset for the TraIT cell line use case		5
EGAD00001002250	mRNA-Seq, HiSeq 2000 dataset of the Cell-line use case	Illumina HiSeq 2000	1
EGAD00010000934	Agilent miRNA dataset	Agilent SurePrint Human miRNA Microarray	2
EGAD00010000935	ACGH 244K dataset	Agilent 244K	10
EGAD00010000936	Affymetrix Exon Array dataset	Affymetrix GeneChip Human Exon 1.0 ST	2
EGAD00010000937	ACGH 180K dataset	Agilent 180K	5
EGAD00010000938	mRNA Array Agilent 44K dataset	Agilent 44K	16
EGAD00010000939	Illumina 1M SNP Array dataset	Illumina 1M SNP Array	2
EGAD00010001006	Proteomics LC-MS MS dataset	Liquid chromatographyâ€“mass spectrometry	8

Publications	Citations
Integration of EGA secure data access into Galaxy. Hoogstrate Y, Zhang C, Senf A, Bijlard J, Hiltemann S, van Enckevort D, Repo S, Heringa J, Jenster G, J A Fijneman R, Boiten JW, A Meijer G, Stubbs A, Rambla J, Spalding D, Abeln S. F1000Res 5: 2016 ELIXIR-2841	2
Systematically linking tranSMART, Galaxy and EGA for reusing human translational research data. Zhang C, Bijlard J, Staiger C, Scollen S, van Enckevort D, Hoogstrate Y, Senf A, Hiltemann S, Repo S, Pipping W, Bierkens M, Payralbe S, Stringer B, Heringa J, Stubbs A, Bonino Da Silva Santos LO, Belien J, Weistra W, Azevedo R, van Bochove K, Meijer G, Boiten JW, Rambla J, Fijneman R, Spalding JD, Abeln S. F1000Res 6: 2017 ELIXIR-1488	3
Fusion transcripts and their genomic breakpoints in polyadenylated and ribosomal RNA-minus RNA sequencing data. Hoogstrate Y, Komor MA, Böttcher R, van Riet J, van de Werken HJG, van Lieshout S, Hoffmann R, van den Broek E, Bolijn AS, Dits N, Sie D, van der Meer D, Pepers F, Bangma CH, van Leenders GJLH, Smid M, French PJ, Martens JWM, van Workum W, van der Spek PJ, Janssen B, Caldenhoven E, Rausch C, de Jong M, Stubbs AP, Meijer GA, Fijneman RJA, Jenster GW. Gigascience 10: 2021 giab080	7