|
| Status |
Public on Dec 17, 2019 |
| Title |
Zinc-dependent gene expression in neurons upon glutamate stimulation |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Zinc (Zn2+) has been increasingly recognized to function as an important neurotransmitter, although how it functions in the context of signaling cascades is as yet unknown. In dissociated rat hippocampal neuron cultures, we stimulated neurons with glutamate, with or without additional exogenous ZnCl2 or a cell-permeable zinc chelator TPA. We found considerable heterogeneity among biological replicates which complicated zinc-dependent gene expression analysis. In general, we saw upregulation of genes implicating ER stress in glutamate-stimulated neurons that experience a zinc signal.
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| Overall design |
5 replicates of each of 4 conditions (unstimulated control, glutamate treatment, glutamate/Zn treatment, glutamate/TPA treatment). Glutamate treatment was used as the reference condition for most comparisons. TPA = tris(2-pyridylmethyl)amine, a Zn2+ chelator.
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| |
|
| Contributor(s) |
Palmer AE, Sanford L |
| Citation missing |
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| |
| Submission date |
Dec 16, 2019 |
| Last update date |
Dec 17, 2019 |
| Contact name |
Lynn Sanford |
| E-mail(s) |
lynn.sanford@colorado.edu
|
| Organization name |
University of Colorado Boulder
|
| Department |
Biochemistry
|
| Lab |
Palmer
|
| Street address |
UCB 596
|
| City |
Boulder |
| State/province |
CO |
| ZIP/Postal code |
80309 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL19057 |
Illumina NextSeq 500 (Mus musculus) |
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| Samples (20)
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|
| Relations |
| BioProject |
PRJNA595846 |
| SRA |
SRP237745 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE142064_DESeq2_gene_cont_glut.txt.gz |
718.3 Kb |
(ftp)(http) |
TXT |
| GSE142064_DESeq2_gene_cont_glzn.txt.gz |
733.4 Kb |
(ftp)(http) |
TXT |
| GSE142064_DESeq2_gene_cont_gtpa.txt.gz |
727.5 Kb |
(ftp)(http) |
TXT |
| GSE142064_DESeq2_gene_glut_glzn.txt.gz |
718.6 Kb |
(ftp)(http) |
TXT |
| GSE142064_DESeq2_gene_glut_gtpa.txt.gz |
719.2 Kb |
(ftp)(http) |
TXT |
| GSE142064_DESeq2_gene_gtpa_glzn.txt.gz |
1.1 Mb |
(ftp)(http) |
TXT |
| GSE142064_all_samples_TPM.txt.gz |
2.1 Mb |
(ftp)(http) |
TXT |
| GSE142064_gene_level_count_annotations.txt.gz |
2.1 Mb |
(ftp)(http) |
TXT |
| GSE142064_gene_level_counts.txt.gz |
724.6 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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