Bulk RNAseq of chronic LPS treated female mouse pituitary across doses

To investigate the mechanisms of chronic inflammation on gonadotropin secretion we performed bulk RNA-seq on pituitaries from female mice chronically exposed to lipopolysaccharide for 6 weeks.,

Pituitaries were dissected between 10 to 11 am from mice after 6 weeks of twice weekly i.p. injections and when they reache diestrous. The pituitaries were frozen in RNAlater (Qiagen) at minus 80 degrees Celsius.

RNA was harvested using Rneasy mini plus kit (Qiagen). 1.3 ug of total RNA was used for the construction of sequencing libraries.

RNA libraries for RNA-seq were prepared using SMARTER mRNA-Seq Library Prep Kit following manufacturer's protocols.

RNA-seq

CLC Genomics Workbench v 11.0.1

Sequence reads were trimmed for adaptor sequence/low-quality sequence using CLC genomic benchwork (parameter- Quality limit: 0.05)

Trimmed sequence reads were mapped to GrCM38/mm10 using CLC genomic benchwork (parameters- mismath cost: 2 insertion cost: 3 deletion cost: 3 length fraction: 0.8 similarity fraction: 0.8)

Read count extraction and normalization were performed using CLC genomic benchwork

, , # GENERAL INFORMATION

1\. Title of Dataset: Bulk RNAseq of chronic LPS treated female mouse pituitary across doses

2\. Author Information

                Principal Investigator Contact Information
                Name: Dequina Nicholas            
                Institution: University of California Irvine
                Address: Irvine, CA USA
                Email:

3\. Date of data collection (single date, range, approximate date): 2019-2022

4\. Geographic location of data collection: La Jolla, CA and Irvine, CA

5\. Experimental summary of dataset contents, contextualized in experimental procedures and results:

This dataset provides the raw and normalized counts for bulk RNA sequencing performed on pituitaries derived from LPS treated female mice. Four mice per group were treated with increasing doses of LPS by twice-weekly intraperitoneal injections for 6 weeks. The total mRNA from pituitaries from mice in diestrus was extracted. After creation of ribodepleted libraries, th...