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Series GSE109620 Query DataSets for GSE109620
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
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)
GSM2947316 SATB1+P1
GSM2947317 SATB1+P2
GSM2947318 SATB1+P3
BioProject PRJNA431541
SRA SRP131216

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Supplementary file Size Download File type/resource
GSE109620_all.gene.rpkm-sjr12315.txt.gz 3.0 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data are available on Series record

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