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Targeted deletion of astrocytic Nhe1 stimulates Wnt/β-catenin-mediated BBB repair and angiogenesis after ischemic stroke
Internal Dataset

UID: 98

Author(s): Begum, Gulnaz*+, Sun, Dandan+, Chattopadhyay, Ansuman+, Chaparala, Srilakshmi+ * Corresponding Author + University of Pittsburgh Author
Description
Examination of effect of deletion of astrocytic Na+/H+ exchanger isoform 1 (Nhe1) on post-stroke recovery and vascular repair. Expression profiling by high throughput sequencing of astrocytes from Gfap-CreERT2+/-;Nhe1f/f mouse brains, 24 hours after transient middle cerebral artery occlusion. Twelve NCBI GEO records: 3 samples each from Wild-type and Nhe1 Astro-KO, both contralateral and ipsilateral. Raw data available in SRA; processed data in supplementary file.
Subject of Study
Mice
Subject Sex
Male
Female
Keywords
Angiogenesis
Astrocytes
Blood-Brain Barrier
Cerebrovascular Circulation
Gene Expression Profiling
High-Throughput Nucleotide Sequencing
Ischemic Stroke
Mus musculus
RNA-Seq
Access via GEO

Expression profiling by high throughput sequencing.
Accession #: GSE145839

Access via SRA

Raw data for 12 samples.
Accession #: SRP250557

Access via BioProject

Overall project information and data.
Accession #: PRJNA608486

Access Restrictions
Free to all
Access Instructions
The NCBI Gene Expression Omnibus, Sequence Read Archive, and BioProject databases provide open access to these files.
Associated Publications
Song S, Huang H, Guan X, Fiesler V, Bhuiyan MIH, Liu R, et al. Activation of endothelial Wnt/β-catenin signaling by protective astrocytes repairs BBB damage in ischemic stroke. Prog Neurobiol. 2021 Apr;199:101963. doi: 10.1016/j.pneurobio.2020.101963. Epub 2020 Nov 26. PMID: 33249091; PMCID: PMC7925353.
Data Type
Genetic/Genomic
Equipment Used
Illumina HiSeq 2500

An obsolesced sequencing system for large-scale genomics.

Software Used
CLC Genomics Workbench, Version: 10.1.1

Complete toolkit for genomics, transcriptomics, epigenomics and metagenomics

DAVID, Version: 6.8

Database for Annotation, Visualization and Integrated Discovery provides a comprehensive set of functional annotation tools for investigators to understand biological meaning behind large list of genes.

Ingenuity Pathway Analysis

For modeling, analyzing, and understanding complex 'omics data

Dataset Format(s)
SOFT (.soft), MINiML (.miniml, .xml), TXT (.txt)
Resource Type(s)
Dataset
Grant Support
R01 NS110755/NINDS
R01 HL144620/NHLBI
S10 OD016236/OD
R01 NS048216/NINDS
R01 HL130363/NHLBI
Data Catalog Record Updated
2021-09-27

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