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Series GSE167529 Query DataSets for GSE167529
Status Public on Mar 30, 2022
Title Transcriptomic alterations in fibroblast from parkinson's disease patients at high and low glucose levels
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary In this study, we evaluate the hypothesis that molecular pathways in a cell model of Parkinson’s disease (PD) could be altered depending of glucose levels. We cultured fibroblasts from sporadic PD (sPD; n=4), PD patients carrying LRRK2 mutations (LRRK2-PD; n=3) and healthy controls (HC; n=4) at high (25 mM) and low (5 mM) glucose and analysed the transcriptome profile by using whole RNA sequencing. We found 1439 differentially expressed transcripts (DET) comparing HC with overall PD cases. These genes are related with THE gene ontology terms cytosqueleton, cell adhesion, protein translation and ribosomes, mitochondrial electron transport between others, when cultured at 25 mM of glucose. However, at 5 mM there are virtually no gene expression changes in PD compared to controls. When compared between 5 and 25 mM condition separately for each group HC and PD, we found 1482 DET in controls, and 3381 in PD cases, but only found altered significant gene ontology terms in PD. These findings suggest that high glucose levels cause specific molecular changes in fibroblasts which is exacerbated in PD, potentially leading to non adaptive changes. This work emphasizes the importance of energetic balance in PD and the need of further research about the role of glucose levels in clinical studies. .
 
Overall design Examination of fibroblast expression by RNA seq at low (5 mM) and high (25 mM) glucose levels

Batch 2 and 3 samples have been re-analyzed from GSE82340 and are also included here.
 
Contributor(s) Ezquerra M, Fernandez-Santiago R
Citation(s) 34853332
Submission date Feb 25, 2021
Last update date Jul 21, 2022
Contact name Mario Ezquerra
E-mail(s) ezquerra@clinic.cat
Phone 0034 932273122
Organization name Fundacio Clinic/IDIBAPS
Department Neurology
Lab Neurodegenerative Diseases
Street address Villarroel 170
City Barcelona
State/province Catalonia
ZIP/Postal code 08027
Country Spain
 
Platforms (2)
GPL11154 Illumina HiSeq 2000 (Homo sapiens)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
Samples (42)
GSM5106731 AA0480 (SP-01)
GSM5106732 AA0481 (SP-02)
GSM5106733 AA0482 (SP-04)
Relations
BioProject PRJNA704899
SRA SRP308198

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

Supplementary file Size Download File type/resource
GSE167529_processed_data_batch2_high.txt.gz 1.7 Mb (ftp)(http) TXT
GSE167529_processed_data_batch3_low.txt.gz 1.5 Mb (ftp)(http) TXT
GSE167529_processed_data_batch4_high.txt.gz 1.6 Mb (ftp)(http) TXT
GSE167529_processed_data_batch4_low.txt.gz 1.6 Mb (ftp)(http) TXT
GSE167529_raw_counts_batch2.txt.gz 1.1 Mb (ftp)(http) TXT
GSE167529_raw_counts_batch3.txt.gz 1.1 Mb (ftp)(http) TXT
GSE167529_raw_counts_batch4.txt.gz 1.5 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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