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| Status |
Public on May 01, 2023 |
| Title |
Serum_Al_12mo_rep1 |
| Sample type |
SRA |
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| Source name |
Serum
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| Organism |
Rattus norvegicus |
| Characteristics |
gender: Male
strain: Sprague-Dawley
metal: Al
time: 12mo
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| Treatment protocol |
Pellets were surgically implanted into the gastrocnemius muscle, and each animal received 2 pellets per limb for a total of 4 pellets per rat. Prior to use, pellets were cleaned and chemically sterilized as previously described (https://doi.org/10.1177%2F1091581814565038)
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| Growth protocol |
Male Sprague–Dawley rats (Rattus norvegicus; age, approximately 30 d; weight, 75 to 100 g) were purchased from Envigo (Barrier 208A, Frederick, MD). Rats were allowed to acclimate in the AFRRI vivarium for at least 2 weeks prior to the start of experiments. The room was maintained at standard temperature (21 ± 2°C) and humidity (30% to 70%), with a 12:12-h light:dark cycle (lights on, 0600) and access to standard rat chow (Teklad Global Rodent Diet 8604, Envigo) and water ad libitum. Rats were pair-housed in plastic microisolation cages (23.8 × 45.4 cm) with filter tops and bedding (Teklad Sani-Chips, Envigo), changed 2 or 3 times weekly. All procedures involving animals were conducted to achieve maximal possible wellbeing of the rats, were IACUC-approved (protocol no. 2016-05-006) prior to the start of the study, and were performed in compliance with the guidelines set forth in the Guide for the Care and Use of Laboratory Animals in an AAALAC-accredited facility.
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| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from serum samples and assessed with the Agilent 2100 Bioanalyzer (Agilent Technologies, Palo Alto, CA).
Library preparation and sequencing was performed by Norgen Biotek. Briefly, library preparation was done using the Norgen Biotek Small RNA Library Prep Kit (Cat. 63600). Sequencing was performed using the NextSeq 500/550 High Output Kit v2 (51 Cycles using a 75-Cycle Kit) on the Illumina NextSeq 500 platform.
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| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina NextSeq 500 |
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| Data processing |
Single-end reads for miRNA were mapped to miRbase version 22 and the Rnor 6.0 Rattus norvegicus genome using sRNAbench and sRNAtoolbox.
Supplementary_files_format_and_content: Tab-delimited matrix table with raw read counts for every miRNA
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| Submission date |
Mar 11, 2021 |
| Last update date |
May 01, 2023 |
| Contact name |
Yuan Wen |
| E-mail(s) |
ywen2@g.uky.edu
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| Phone |
8592186846
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| Organization name |
University of Kentucky
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| Street address |
760 Press Ave
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| City |
Lexington |
| State/province |
Kentucky |
| ZIP/Postal code |
40536 |
| Country |
USA |
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| Platform ID |
GPL20084 |
| Series (1) |
| GSE168757 |
Serum miRNAs as potential biomarkers for exposure to embedded military-relevant metals |
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| Relations |
| BioSample |
SAMN18270258 |
| SRA |
SRX10323506 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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