Transcriptome Profiling by RNA-Sequencing

RNA-sequencing was performed as published (12 (link), 16 (link), 17 (link)). In brief, full-length double-stranded cDNA was generated from 5 ng of total RNA and amplified using the SMARTer Ultra Low RNA Kit (Illumina, San Diego, CA, USA). Library preparation was performed from 10 ng of fragmented cDNA using the NEBNext Chip-Seq Library Prep protocol (New England BioLabs, Ipswich, MA, USA). Libraries were sequenced on an Illumina Hiseq2000 with 2 × 50-bp paired-end reads.

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Seckinger A., Hillengass J., Emde M., Beck S., Kimmich C., Dittrich T., Hundemer M., Jauch A., Hegenbart U., Raab M.S., Ho A.D., Schönland S, & Hose D. (2018). CD38 as Immunotherapeutic Target in Light Chain Amyloidosis and Multiple Myeloma—Association With Molecular Entities, Risk, Survival, and Mechanisms of Upfront Resistance. Frontiers in Immunology, 9, 1676.

Publication 2018

SMARTer Ultra Low RNA Kit NEBNext Chip-Seq Library Prep Hiseq2000

Cdna Chip seq Library

Corresponding Organization : University Hospital Heidelberg

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Variable analysis

independent variables

None explicitly mentioned

dependent variables

Transcriptome profiling by RNA-sequencing

control variables

Total RNA input amount (5 ng)
Library preparation protocol (NEBNext Chip-Seq Library Prep)
Sequencing platform (Illumina Hiseq2000 with 2 × 50-bp paired-end reads)

controls

No positive or negative controls were explicitly mentioned in the input protocol.

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