|
| Status |
Public on May 21, 2020 |
| Title |
39 IgMlow |
| Sample type |
RNA |
| |
|
| Source name |
Sorted B cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: Sorted B cells
volunteer: 39
cell population: IgMlow
|
| Treatment protocol |
Sorted cells of healthy donors were collected in cold TRIzol.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using RNeasy Micro kit (Qiagen, Hiden, NRW) according to the manufacturer's protocol.
|
| Label |
biotin
|
| Label protocol |
Biotin labeling was performed using the WT Plus reagent kit (Affymetrix, Santa Clara, CA) according to the manufacturer's protocol.
|
| |
|
| Hybridization protocol |
The labeled, fragmented DNA was hybridized to the Clariom D Human Array for 18 hours in a GeneChip Hybridization oven 640 at 45oC with rotation (60 rpm). The hybridized samples were washed and stained using an Affymetrix fluidics station 450.
|
| Scan protocol |
After staining, microarrays were immediately scanned using an Affymetrix GeneArray Scanner 3000 7G Plus.
|
| Description |
Gene expression data from IgD+, IgMlow, CD27+ B cells.
|
| Data processing |
Raw Affymetrix CEL files were normalized to produce Entrez Gene-identifier-specific expression values using the implementation of the Robust Multiarray Average (RMA) in the affy Bioconductor package (version 1.52.0), using R version 3.3.2 and the Brainarray clariomdhumanhsentrezgcdf R package (version 21.0.0).
Brainarray Entrez Gene CDF, version 21.0.0, Human Clariom D
|
| |
|
| Submission date |
Apr 22, 2020 |
| Last update date |
May 21, 2020 |
| Contact name |
Boston University Microarray and Sequencing Resource |
| E-mail(s) |
msrdata@bu.edu
|
| Organization name |
Boston University
|
| Department |
Microarray and Sequencing Resource
|
| Street address |
72 East Concord Street, E631
|
| City |
Boston |
| State/province |
MA |
| ZIP/Postal code |
02118 |
| Country |
USA |
| |
|
| Platform ID |
GPL26356 |
| Series (1) |
| GSE149089 |
Differences in the transcriptomes of IgMhigh and IgMlow human memory B cells |
|
