|
| Status |
Public on Jan 25, 2019 |
| Title |
Gene Expression Profiling of Cutaneous CD30+ Lymphoproliferative Disorders by RNA-seq |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Cutaneous CD30+ lymphoproliferative disorder (CD30+LPDs), including lymphomatoid papulosis (LyP) and primary cutaneous anaplastic large-cell lymphoma (PCALCL), comprises the second most common group of cutaneous T cell lymphoma. Previously, we reported that special AT-rich sequence-binding protein1 (SATB1), a thymocyte specific chromatin organizer, was over-expressed and promoted malignant T-cell proliferation in a portion of CD30+LPDs, whereas other CD30+LPDs didn't express SATB1 at all. To elucidate the underlying molecular events in CD30+LPDs with differential SATB1 expression, we subjected 4 SATB1+ and 3 SATB1- CD30+LPDs skin biopsies to second-generation RNA-sequencing (RNA-seq). These data provide a significant resource for studies of CD30+LPDs.
|
| |
|
| Overall design |
200ng total RNA samples were extracted and purified from 7 CD30+LPDs skin lesions (4 SATB1+, 3 SATB1-) to establish RNA library. Then the library was qualified through Agilent 2100 bioanalyzer instrument (Agilent Technologies, Santa Clara, CA) and Quantitative real-time polymerase chain reaction. The qualified library was sequenced on an Illumina HiSeqTM 2000 platform using paired-end reads. 10G raw data for each sample were obtained. The reads were aligned to the hg19 genome with SOAPaligner/SOAP2. Gene expression levels were calculated by reads per kilobase transcriptome per million mapped reads（RPKM）method.
|
| |
|
| Contributor(s) |
Sun J, Wang Y |
| Citation(s) |
29510190, 35241665, 37790936 |
| |
| Submission date |
Jan 25, 2018 |
| Last update date |
Oct 18, 2023 |
| Contact name |
Yang Wang |
| E-mail(s) |
yangwang_dr@bjmu.edu.cn
|
| Organization name |
Peking University First Hospital
|
| Street address |
Xishiku Street
|
| City |
Beijing |
| ZIP/Postal code |
100034 |
| Country |
China |
| |
|
| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
|
| Samples (7)
|
|
| Relations |
| BioProject |
PRJNA431541 |
| SRA |
SRP131216 |
Less...
More...