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| Status |
Public on Dec 25, 2017 |
| Title |
ABBG (AGA, balding area, bulge) |
| Sample type |
SRA |
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| Source name |
Hair follicle
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| Organism |
Homo sapiens |
| Characteristics |
tissue: hair follicle
tissue section: bulge
age: range 27-45, median 31.9
diagnosis: Hamilton-Norwood baldness scale score 3-5
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| Treatment protocol |
Hair follicles obtained by FUE technique(0.8mm, 0.9mm, 1mm wide) were immediately placed in a sterile petri dish containing normal saline at 4℃.With an operating microscope and microsurgical instruments, fat and redundant tissues were removed from the hair follicle gently.Then two parts were cut away from the tissue: end-bulb areaand bulge region(4-6 mm below thesebaceous gland). The separated tissues were collected in TRIZOL Reagent(Invitrogen, Carlsbad, CA, USA) for next test.
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using Trizol reagent (Invitrogen, Carlsbad, CA, USA) following manufacturer’s recommendations. RNA quality and quantity of all samples were evaluated by using Bioanalyzer 2100 and RNA 6000 Nano LabChip Kit (Agilent, CA, USA) with RIN number > 7.5.
RNA libraries were prepared for sequencing using standard Illumina protocols
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| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
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| Description |
bulge portion of hair follicle
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| Data processing |
Illumina bcl2fastq software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped hg38 whole genome using tophat2 with parameters -read-mismatches 2 -read-edit-dist 2 -max-intron-length 5000000 -library-type fr-unstranded -num-threads 8 -mate-inner-dist 40.
Fragments Per Kilobase of transcript per Million fragments mapped (FPKM) were calculated using a protocol from Trapnell et al., Nature Biotechnology, 2010.
Genome_build: hg38
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample ...
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| Submission date |
Jul 14, 2017 |
| Last update date |
May 15, 2019 |
| Contact name |
Qian Qu |
| E-mail(s) |
[email protected]
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| Phone |
15521263230
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| Organization name |
Nanfang Hospital of Southern Medical University
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| Street address |
1838 North Guangzhou AV
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| City |
GuangZhou |
| ZIP/Postal code |
510515 |
| Country |
China |
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| Platform ID |
GPL20795 |
| Series (1) |
| GSE101451 |
Transcripotome analysis of different locations of hair follicles (bulb, bulge) in androgenetic alopecia |
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| Relations |
| BioSample |
SAMN07352307 |
| SRA |
SRX3005798 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM2703812_ABBG.txt.gz |
424.3 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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