Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

RNA-seq of brain tissues of WT and abcb4 knockout zebrafish at 2 months and 30 months

ABSTRACT: The ATP-binding cassette subfamily B member 1 (ABCB1), encoding a multidrug transporter P-glycoprotein, plays a critical role in the efflux of xenobiotics in humans and is implicated in cancer resistance to chemotherapy—however, little information regarding Pgp at the zebrafish. In addition, to study the function of Pgp in the zebrafish brain in the aging process, we performed RNA-seq using brain tissue of WT and abcb4 knockout zebrafish at different ages, such as 2 months and 30 months.

INSTRUMENT(S): Illumina NovaSeq 6000

ORGANISM(S): Danio rerio

SUBMITTER: jinhee park

PROVIDER: E-MTAB-12901 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Similar Datasets

Project description:Molecular factors governing liver pathology in abcb4 (-/-) mice. Dr. Nakken, Karl Esten, Dr. Berge, Knut E., Dr. Knut J. Labori, StÃ¥le NygÃ¥rd, Dr. Terese Haaland , professor Morten G. RÃ¦der. Institute for Experimental Medical Research and Department of Pathology, Ulleval University Hospital, Oslo, Norway and Institute for Medical Genetics, National Hospital, Oslo, Norway; E-mail: k.e.nakken@medisin.uio.no. Background and Aims: Abcb4 (mdr2) (-/-) mice secrete phosphatidylcholine-free bile and develop chronic cholangitis. This study aims at identifying differentially transcribed genes that govern liver pathology during this disease. Methods: Hepatic gene transcription was measured in 3, 6, 9 and 20 week old abcb4 (-/-) mice (FVB.129P2-abcb4tm1Bor/J) using cDNA microarrays; FVB/NJ abcb4 (+/+) mice serving as controls. Altered gene transcriptions were verified by real-time polymerase chain reaction. Attention focused on genes coding for chemokines and cytokines of potential pathogenic importance and on matrix housekeeping genes, growth factors and genes regulating wound healing, epithelial morphogenesis and tissue development. Disease phenotype was characterized by histopathology scoring. Results: Transcription of serpina3 genes showed early downregulation. Genes exhibiting upregulated transcription included: Cxcl10, Ccl2, Ccl20, Ctgf, Elf3, Lgals3, Mmp12, Mmp15, Spp1, Loxl2, Pdgfa, Pdgfrb, Sparc, Tgfbi, Tgfbr2. Conclusions: During early phases of chronic cholangitis in abcb4 (-/-) mice, hepatic downregulation of serpina3 genes and enhanced transcription of genes sustaining inflammatory processes contribute to fashioning the portal tract pathology. Later, enhanced transcription of genes governing tissue repair consolidate the portal tract pathology. Experiment Overall Design: A time-series where 5 male mice were sacrificed at time-points 3,6,9 and 20 weeks, both sick knockouts and healthy controls. Including one dye-swap there were a total of 6 arrays at each time-point.

Dataset Information

RNA-seq of brain tissues of WT and abcb4 knockout zebrafish at 2 months and 30 months

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets