title: GSM7111366: single-cell RNA seq data of CSF from patient MS72; Homo sapiens; RNA-Seq
library_construction_protocol: CSF samples were centrifuged for 5 min at 400 g and resuspended in 40 µl of X-Vivo 15 medium. 6 µl were used for counting in a Fuchs-Rosenthal chamber. The maximum of CSF cells used was 10,000 cells and if less than 10,000 cells were available, all cells were used. To carry out scRNA-seq with blood samples, gradient centrifugation was performed with blood using Lymphoprep (Stemcell). The cells in the interphase were extracted and washed  in 10 ml of X-Vivo 15 media. After manual cell counting (Fuchs-Rosenthal chamber), we used up to 10,000 cells for subsequent steps (see Table S1 for details). Single cell suspensions were loaded onto the Chromium Single Cell Controller using the Chromium Single Cell 3' Library & Gel Bead Kit v2 (both from 10X Genomics). Sample processing and library preparation were performed according to the manufacturer's instructions using AMPure beads (Beckman Coulter). Sequencing was carried out commercially on an Illumina Nextseq500 with 26-8-0-57 read setup.