Work Description

Title: Supplemental Data for "Enduring and sex-specific changes in hippocampal gene expression after a subchronic immune challenge" Open Access Deposited

http://creativecommons.org/licenses/by-nc/4.0/
Attribute Value
Methodology
  • Hippocampus was dissected from male and female mice 3 months after a subchronic lipopolysaccharide challenge (Tchessalova & Tronson, 2019;  https://doi.org/10.1101/379339). RNA isolation was conducted using Life Technologies PureLink RNA Mini kit (cat. no. 12183018A). For detailed methods, please see  https://doi.org/10.1101/566570 RNA sequencing (Illumina 4000 Hi-seq, single-end, nonstrand, read lengths 50, sequencing depth 40million reads per sample) was used. Alignment, differential expression analysis used Tuxedo Suite software (Bowtie2 v.2.2.1, Tophat v.2.0.13, and Cufflinks v.2.2.1 ). Benjamini corrections were used to determine p-values for differentially expressed genes. Raw gene expression data is available from GEO (GSE126678;  https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE126678) and Sequence Read Archive (SRA) (SRP186132,BioProject number PRJNA522922;  https://www.ncbi.nlm.nih.gov/bioproject/PRJNA522922/ ).
Description
  • The main goal of this research was to identify potential molecular pathways that contribute to memory dysregulation and decline that persists long after illness or inflammation. We have previously established a subchronic immune challenge model that results in memory impairments months after the inflammatory challenge. This project aimed to determine whether memory impairments were accompanied by transcriptional dysregulation in memory related brain region (the hippocampus). These data show the differential gene expression as log2fold change (and p-value) in males and females 3 months after immune challenge (Supp Tables 1 and 2); after a subsequent immune challenge (Supp Tables 3 and 4); the differential regulation of genes in males and females (Supp Table 5); genes differentially expressed in the hippocampus of males and females at baseline (Supp Table 6) and the differential regulation of those genes in males and females after immune challenge (Supp Tables 7,8).
Creator
Depositor
  • ntronson@umich.edu
Contact information
Discipline
Funding agency
  • National Institutes of Health (NIH)
Keyword
Citations to related material
  • Tchessalova, D., & Tronson, N. C. (2019). Enduring and sex-specific changes in hippocampal gene expression after a subchronic immune challenge. BioRxiv, 566570. https://doi.org/10.1101/566570
Resource type
Last modified
  • 09/09/2019
Published
  • 09/09/2019
Language
DOI
License
To Cite this Work:
Tronson, N., Tchessalova, D. (2019). Supplemental Data for "Enduring and sex-specific changes in hippocampal gene expression after a subchronic immune challenge" [Data set]. University of Michigan - Deep Blue. https://doi.org/10.7302/7zz3-jh58

Relationships

Files (Count: 8; Size: 58.5 KB)

Thumbnail Title Original Upload Last Modified File Size Access Actions
Default SuppTable1_Males_LongTerm_DEGs.csv 2019-09-06 2019-09-06 12.8 KB Open Access
Default SuppTable2_Females_LongTerm_DEGs.csv 2019-09-06 2019-09-06 1.52 KB Open Access
Default SuppTable3_Males_LongTerm_Acute_DEGs.csv 2019-09-06 2019-09-06 3.43 KB Open Access
Default SuppTable4_Females_LongTerm_Acut...s.csv 2019-09-06 2019-09-06 23.6 KB Open Access
Default SuppTable5_LongTerm_Acute_DEGs_i...s.csv 2019-09-06 2019-09-06 1.87 KB Open Access
Default SuppTable6_Males_and_Female_Bias...s.csv 2019-09-06 2019-09-06 12.6 KB Open Access
Default SuppTable7_SexBiased_genes_Regul...m.csv 2019-09-06 2019-09-06 1.45 KB Open Access
Default SuppTable8_SexBiased_genes_Regul...e.csv 2019-09-06 2019-09-06 1.24 KB Open Access

Download All Files (To download individual files, select them in the “Files” panel above)

Best for data sets < 3 GB. Downloads all files plus metadata into a zip file.



Best for data sets > 3 GB. Globus is the platform Deep Blue Data uses to make large data sets available.   More about Globus

Analytics

View Work Analytics