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CRCI2NA Team ICAGEN

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Dr Stephane S Minvielle
stephane.minvielle@univ-nantes.fr

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This DAC controls 8 datasets

Dataset ID	Description	Technology	Samples
EGAD50000002250	First batch of 204 samples out of the 418 RNA-seq samples from the MIDAS multi-omic cohort. Paired-end fastq files are provided in this dataset. RNA-seq libraries were prepared using Watchmaker mRNA Library Prep Kit for Illumina protocols. The libraries were sequenced on an Illumina NovaSeq X Plus sequencer as paired end 2x100 bp reads (66 million paired-end reads per sample).	Illumina NovaSeq X	204
EGAD50000002251	First batch of 37 tumor and 24 constitutional samples out of 421 WGS samples from the MIDAS multi-omic cohort. WGS libraries were prepared from 400 ng of DNA using the Twist Library Preparation EF Kit. The sequencing was performed on an Illumina NovaSeq X Plus sequencer as paired end 2x150 bp reads, with an average depth of 46X for tumors and 27X for matched constitutional samples.	Illumina NovaSeq X	44
EGAD50000002252	First batch of 120 samples out of 422 WGEM-seq samples from the MIDAS multi-omic cohort. WGEM-seq libraries were prepared using the NEBNext® Enzymatic Methyl-seq kit. The libraries were sequenced on an Illumina NovaSeq X Plus sequencer as paired end 2x150 bp reads, with an average depth of 13X.	Illumina NovaSeq X	120
EGAD50000002482	Second batch of 216 samples out of the 420 RNA-seq samples from the MIDAS multi-omic cohort. Paired-end fastq files are provided in this dataset. RNA-seq libraries were prepared using Watchmaker mRNA Library Prep Kit for Illumina protocols. The libraries were sequenced on an Illumina NovaSeq X Plus sequencer as paired end 2x100 bp reads (66 million paired-end reads per sample).	Illumina NovaSeq X	214
EGAD50000002483	Second batch of 250 samples out of 422 WGEM-seq samples from the MIDAS multi-omic cohort. WGEM-seq libraries were prepared using the NEBNext® Enzymatic Methyl-seq kit. The libraries were sequenced on an Illumina NovaSeq X Plus sequencer as paired end 2x150 bp reads, with an average depth of 13X.	Illumina NovaSeq X	250
EGAD50000002687	Second batch of 202 tumor and 182 constitutional samples out of 421 WGS samples from the MIDAS multi-omic cohort. WGS libraries were prepared from 400 ng of DNA using the Twist Library Preparation EF Kit. The sequencing was performed on an Illumina NovaSeq X Plus sequencer as paired end 2x150 bp reads, with an average depth of 46X for tumors and 27X for matched constitutional samples.		207
EGAD50000002688	Third batch of 55 samples out of 422 WGEM-seq samples from the MIDAS multi-omic cohort. WGEM-seq libraries were prepared using the NEBNext® Enzymatic Methyl-seq kit. The libraries were sequenced on an Illumina NovaSeq X Plus sequencer as paired end 2x150 bp reads, with an average depth of 13X.	Illumina NovaSeq X	55
EGAD50000002807	Third batch of 163 tumoral and 182 constitutional samples out of 422 WGS samples from the MIDAS multi-omic cohort. WGS libraries were prepared from 400 ng of DNA using the Twist Library Preparation EF Kit. The sequencing was performed on an Illumina NovaSeq X Plus sequencer as paired end 2x150 bp reads, with an average depth of 46X for tumors and 27X for matched constitutional samples.	Illumina NovaSeq X	189