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| Status |
Public on Dec 14, 2025 |
| Title |
Human keratinocyte SOCS6 knockdown control 3 |
| Sample type |
SRA |
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| Source name |
skin
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| Organism |
Homo sapiens |
| Characteristics |
tissue: skin
cell type: keratinocyte cells
treatment: SOCS6 knockdown control
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| Extracted molecule |
total RNA |
| Extraction protocol |
Healthy foreskin tissue from circumcision (donors with no history of atopic dermatitis [AD] or inflammatory skin diseases) was used to isolate human primary keratinocytes (KCs). The tissues were preserved at 4℃ and transported to the laboratory on ice within 6 hours. After washing, the subcutaneous tissue was removed and the remaining tissue was cut into small pieces. The tissue pieces were digested with neutral protease at 4℃ overnight, followed by trypsin digestion with shaking at 37℃ for 7 minutes. Digestion was terminated with serum, and the cell suspension was filtered and centrifuged. Complete medium was prepared, and the cells were resuspended, seeded, and cultured at 37℃. Subsequent RNA extraction and sequencing were performed on KCs with SOCS6 knockdown or overexpression.
RNA-seq
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
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| Description |
Library name: KD_C_3
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| Data processing |
Raw reads were quality-controlled with fastp (v0.20.0), then aligned to the Homo sapiens reference genome (GRCh38) using HISAT2 (v2.2.1). Gene-level expression was quantified via featureCounts (v2.0.1) based on annotated genomic intervals, and transcript-level expression was estimated using StringTie (v2.1.6).
Assembly: GRCh38
Supplementary files format and content: CSV files include raw counts for each sample
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| Submission date |
Dec 05, 2025 |
| Last update date |
Dec 14, 2025 |
| Contact name |
Zeng Jinrong |
| E-mail(s) |
zengjinrong1989@csu.edu.cn
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| Organization name |
the Third Xiangya Hospital, Central South University
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| Street address |
No.138 Tongzipo Rd, Yuelu District, Changsha, Hunan, China, 410013
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| City |
Changsha |
| ZIP/Postal code |
410013 |
| Country |
China |
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| Platform ID |
GPL24676 |
| Series (1) |
| GSE312734 |
study on the role and mechanism of SOCS6 in keratinocytes |
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| Relations |
| BioSample |
SAMN53698295 |
| Supplementary data files not provided |
| Raw data are available in SRA |
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