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Next Generation Sequencing of Loxp (Rxratm1Krc/J,Rxra loxP), Hetero(Nex-cre;Rxratm1Krc/J,Rxra cKO-Het) and cKO (Nex-cre;Rxratm1Krc/J,Rxra cKO) mouse Transcriptomes

ABSTRACT: Next Generation Sequencing of Loxp (Rxratm1Krc/J,Rxra loxP), Hetero(Nex-cre;Rxratm1Krc/J,Rxra cKO-Het) and cKO (Nex-cre;Rxratm1Krc/J,Rxra cKO) mouse Transcriptomes

PROVIDER: PRJNA563673 | ENA |

REPOSITORIES: ENA

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Next Generation Sequencing of Loxp (Rxratm1Krc/J,Rxra loxP), Hetero(Nex-cre;Rxratm1Krc/J,Rxra cKO-Het) and cKO (Nex-cre;Rxratm1Krc/J,Rxra cKO) mouse Transcriptomes

Project description:When compared with Loxp, both Hetero and cKO mice showed reduced expression of immediate early genes

2019-09-04 | GSE136788 | GEO

Study on the genomic changes in ColIa2 Cre x RBP-Jkappa loxp/loxp mice

Project description:Skin tumor formed in the ColIa2 Cre x RBP-Jkappa loxp/loxp mice was analyzed for genomic changes by comparing with normal tissues from the same mice.

2012-05-01 | GSE36464 | GEO

Cre-loxP-induced Ewsr1-Atf1 translocation tumors

Project description:Cre-loxP-induced Ewsr1-Atf1 translocation tumors

| PRJNA666346 | ENA

Study on the genomic changes in ColIa2 Cre x RBP-Jkappa loxp/loxp mice

Project description:Skin tumor formed in the ColIa2 Cre x RBP-Jkappa loxp/loxp mice was analyzed for genomic changes by comparing with normal tissues from the same mice. Genomic DNA were isolated from each individual tumor and compared with the DNA extracted from the brain tissue in the same mouse.

2012-04-30 | E-GEOD-36464 | biostudies-arrayexpress

RNAseq from mouse Cre-loxP-induced Ewsr1-Atf1 translocation

Project description:RNAseq from mouse Cre-loxP-induced Ewsr1-Atf1 translocation

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Differential gene expression analysis for BAL cells isolated from LysM Cre and Netrin1loxp/loxp LysM Cre mice after intratracheal LPS challenge

Project description:Purpose: The goal of this study is to compare NGS-derived transcriptome profiling (mRNA-seq) of expressed genes between LysM Cre and Netrin1loxp/loxp LysM Cre mice 3 days after intratracheal LPS challenge in order to explain the worsened outcomes and increased levels of inflammation we measure in the Netrin1loxp/loxp LysM Cre mice Methods: Three days after mice were treated with intratracheal injections of LPS, BAL cells were collected and then depleted for neutrophils using antibody-mediated depletion. The remaining cells were used for RNA isolation. mRNA profiles were generated by deep sequencing, in quadruplicate (one sample in the Netrin1loxp/loxp LysM Cre group was excluded as the sequence depth was only half compare to other 3 replicates), using paired-end 75-cycle sequencing on an Illumina NextSeq 550 System. Bases with quality scores < 20 and adapter sequences were removed from raw data with Cutadapt (v1.15), followed by alignment of clean RNA-seq reads to GRCm38 with STAR(v2.5.3a). Gene abundance was counted by HTseq-count uniquely-mapped reads number with default parameter using GencodeM15. Genes with > 5 reads in at least one sample were included for differential expression analysis by DESeq2 software.

2021-02-24 | GSE167333 | GEO

Genome-wide analysis of gene expression of Flk1Cre;ETV2 CKO mouse yolk sacs.

Project description:To identify genes critical for vascular development, we generated mice where ETV2 is inactivated in FLK1+ cells by a loxP-Cre recombination approach. Results provide a detailed insight into the function of ETV2 in emrbyonic vasculare formation. Total RNA obtained from E9.5 yolk sacs from Flk1Cre;ETV2 CKO and control mice.

2014-11-17 | E-GEOD-51407 | biostudies-arrayexpress

Transcription profiling of prostate tumors derived from the PSA-Cre;PtenLoxP/LoxP mouse prostate cancer model

Project description:1. Comparison of gene expression profiles of normal prostates, hyperplastic prostates (4-5 month old mice) and prostate tumors (>10 month old mice) isolated from PSA-Cre;Pten-loxP/loxP mice 2.Comparison of the gene expression profiles and molecular subtyping of prostate tumors isolated from targeted Pten knockout mice

2016-09-30 | E-MTAB-3970 | biostudies-arrayexpress

RNAseq analysis of Chrnb4-cre driven Dicer conditional knockout (Dicer CKO) whole retinas

Project description:We have shown that Chrnb4-cre; Dicerflox/flox retinas (Dicer CKO) display a cone dystrophy by postnatal day P21, independent of rod degeneration. To elucidate which gene pathways were affected by Dicer loss, RNA sequencing was performed in whole neural retinas of P21 control and Dicer CKO mice. This experiment aims to identify which genes were differentially expressed between Dicer conditional knockout and control mice.

2019-01-14 | E-MTAB-6133 | biostudies-arrayexpress

miRNAseq analysis of Chrnb4-cre driven Dicer conditional knockout (Dicer CKO) whole retinas

Project description:We have shown that Chrnb4-cre; Dicerflox/flox retinas (Dicer CKO) display a cone dystrophy by postnatal day P21, independent of rod degeneration. To elucidate which miRNAs were involved in such phenotype, miRNA sequencing was performed in whole retinas of P21 and 3.5 month old control and Dicer CKO mice. This experiment aims to identify which miRNAs were differentially expressed in Dicer conditional knockout mice when compared to control mice.

2019-01-14 | E-MTAB-6132 | biostudies-arrayexpress

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