NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE241686 Query DataSets for GSE241686
Status Public on Dec 01, 2023
Title Diagnostic marker development of tRNA-derived fragments in cerebrospinal fluid and blood serum
Organism Homo sapiens
Experiment type Non-coding RNA profiling by high throughput sequencing
Summary The development of non-invasive diagnostic methods is crucial in early disease detection and thus better treatment options. Small RNAs have been identified as good candidates for such diagnostic markers due to their small size, which allows ease of transport from live cells. Correlating small RNAs in bodily fluid with those in tissue cells of interest may even shed light on disease mechanisms and the development of therapeutic targets. tRNA-derived RNA fragments (tRFs), a family of recently discovered small non-coding RNAs (sncRNAs), have been found to be significantly changed in various disease states, including Alzheimer's disease (AD), the most common type of dementia. Previously, tRFs have been found to be significantly enhanced in human AD hippocampus tissues. However, whether tRFs change in body fluids is unknown.
In this study, we planned to identify baselines for potential usage of tRFs as biomarkers in cerebrospinal fluid and blood serum for future development of AD biomarkers. Towards this goal, we used T4 polynucleotide kinase-RNA-seq, a modified next-generation sequencing technique, to identify detectable tRFs in human cerebrospinal fluid (CSF) and serum samples. Interestingly, we found an abundance of tRFs in both CSF and serum samples in comparison to microRNAs, well-known small RNAs (about 3-10 times higher in read counts). This clearly indicates the significant potential of tRFs as non-invasive biomarkers in CSF and serum.
 
Overall design We obtained CSF samples through the National Institutes of Health (NIH) NeuroBioBank (https://neurobiobank.nih.gov/). Serum samples were requested and obtained from the Texas Alzheimer's Research and Care Consortium (TARCC).
 
Contributor(s) Wu W, Shen A, Lee I, Spratt H, Pappolla M, Fang X, Bao X
Citation(s) 37980659
Submission date Aug 24, 2023
Last update date Feb 14, 2024
Contact name Xiaoyong Bao
Organization name University of Texas Medical Branch
Department Pediatrics
Street address 301 University Boulevard
City Galveston
State/province TX
ZIP/Postal code 77555-0366
Country USA
 
Platforms (1)
GPL21697 NextSeq 550 (Homo sapiens)
Samples (4)
GSM7733700 CSF, control 1
GSM7733701 CSF, control 2
GSM7733702 Serum, control 3
Relations
BioProject PRJNA1009114

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE241686_s1-4.matrix.txt.gz 281.0 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap