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Woodchuck and human liver comparison

ABSTRACT: Total RNA from adult human and woodchuck liver was analyzed on human membrane arrays. Two human and two woodchuck liver samples were analyzed in duplicate. The samples were numbered H1a, H1b, H2a, H2b, WC1a, WC1b, WC2a, and WC2b. H, represents human liver; WC represents woodchuck liver. The numbers 1 and 2 were the two individual samples. The a and b represent replicates of the same RNA sample. Keywords = liver, adult, normal, human, woodchuck Keywords: other

ORGANISM(S): Homo sapiens Marmota monax

PROVIDER: GSE439 | GEO | 2003/05/27

SECONDARY ACCESSION(S): PRJNA85019

REPOSITORIES: GEO

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Woodchuck and human liver comparison

Project description:Total RNA from adult human and woodchuck liver was analyzed on human membrane arrays. Two human and two woodchuck liver samples were analyzed in duplicate. The samples were numbered H1a, H1b, H2a, H2b, WC1a, WC1b, WC2a, and WC2b. H, represents human liver; WC represents woodchuck liver. The numbers 1 and 2 were the two individual samples. The a and b represent replicates of the same RNA sample. Keywords = liver, adult, normal, human, woodchuck

2010-06-05 | E-GEOD-439 | biostudies-arrayexpress

Woodchuck and human liver comparison

Project description:Woodchuck and human liver comparison

| PRJNA85019 | ENA

Transcriptomic analysis of the woodchuck model of chronic hepatitis B

Project description:This SuperSeries is composed of the following subset Series: GSE36533: Transcriptomic analysis of the woodchuck model of chronic hepatitis B: Liver gene expression in uninfected, resolved and chronically infected woodchucks GSE36541: Transcriptomic analysis of the woodchuck model of chronic hepatitis B: Kidney gene expression in uninfected, resolved and chronically infected woodchucks GSE36544: Transcriptomic analysis of the woodchuck model of chronic hepatitis B: Spleen gene expression in uninfected, resolved and chronically infected woodchucks GSE36545: Transcriptomic analysis of the woodchuck model of chronic hepatitis B: Liver gene expression in tumor and non-tumor samples from chronically infected woodchucks Refer to individual Series

2012-04-10 | E-GEOD-36250 | biostudies-arrayexpress

Intrahepatic transcriptional signature associated with response to interferon-a treatment in the woodchuck model of chronic hepatitis B

Project description:To define the intrahepatic cellular and molecular characteristics of the antiviral response to wIFN-alpha in woodchuck, the transcriptional profiles of woodchuck liver were studied by using RNASeq Woodchucks liver samples with chronic woodchuck hepatitis virus (WHV) infection were treated with recombinant woodchuck IFN-alpha or with placebo for 26 weeks

2015-08-07 | E-GEOD-71582 | biostudies-arrayexpress

Intrahepatic transcriptional signature associated with response to interferon-a treatment in the woodchuck model of chronic hepatitis B

2015-08-07 | GSE71582 | GEO

Transcriptomic analysis of the woodchuck model of chronic hepatitis B: Liver gene expression in tumor and non-tumor samples from chronically infected woodchucks

Project description:The Eastern woodchuck (Marmota monax) is naturally infected with woodchuck hepatitis virus (WHV), a hepadnavirus closely related to the human hepatitis B virus (HBV). The woodchuck is used as an animal model for studying chronic hepatitis B (CHB) and HBV-associated hepatocellular carcinoma (HCC) in humans, but the lack of sequence information has hitherto precluded functional genomics analysis. To address this major limitation of the model, we report here the sequencing, assembly and annotation of the woodchuck transcriptome, together with the generation of custom woodchuck microarrays. Using this new platform, we characterized the transcriptional response to persistent WHV infection and WHV-induced HCC. This revealed that chronic WHV infection, like HBV, is associated with (i) a limited intrahepatic type I interferon response, (ii) intrahepatic induction of markers associated with T cell exhaustion, (iii) elevated levels of suppressor of cytokine signaling 3 (SOCS3) in the liver, and (iv) intrahepatic accumulation of neutrophils. Underscoring the translational value of the woodchuck model, this study also determined that WHV-induced HCC shares molecular characteristics with a subtype of human HCC with poor prognosis. Conclusion: Our data establish the translational value of the woodchuck model and provide new insights into immune pathways which may play a role either in the persistence of HBV infection or the sequelae of CHB. Custom microarrays, generated from sequences obtained in transcriptome sequencing of woodchuck liver and PBMCs, were used to examine non-tumor vs. tumor gene expression in liver samples obtained from animals chronically infected with WHV (n=13). Multiple technical replicates per woodchuck sample are included.

2012-04-10 | E-GEOD-36545 | biostudies-arrayexpress

Transcriptomic analysis of the woodchuck model of chronic hepatitis B: Liver gene expression in uninfected, resolved and chronically infected woodchucks

Project description:The Eastern woodchuck (Marmota monax) is naturally infected with woodchuck hepatitis virus (WHV), a hepadnavirus closely related to the human hepatitis B virus (HBV). The woodchuck is used as an animal model for studying chronic hepatitis B (CHB) and HBV-associated hepatocellular carcinoma (HCC) in humans, but the lack of sequence information has hitherto precluded functional genomics analysis. To address this major limitation of the model, we report here the sequencing, assembly and annotation of the woodchuck transcriptome, together with the generation of custom woodchuck microarrays. Using this new platform, we characterized the transcriptional response to persistent WHV infection and WHV-induced HCC. This revealed that chronic WHV infection, like HBV, is associated with (i) a limited intrahepatic type I interferon response, (ii) intrahepatic induction of markers associated with T cell exhaustion, (iii) elevated levels of suppressor of cytokine signaling 3 (SOCS3) in the liver, and (iv) intrahepatic accumulation of neutrophils. Underscoring the translational value of the woodchuck model, this study also determined that WHV-induced HCC shares molecular characteristics with a subtype of human HCC with poor prognosis. Conclusion: Our data establish the translational value of the woodchuck model and provide new insights into immune pathways which may play a role either in the persistence of HBV infection or the sequelae of CHB. Custom microarrays, generated from sequences obtained in transcriptome sequencing of woodchuck liver and PBMCs, were used to examine liver gene expression in animals chronically infected with WHV (n=13), animals that had resolved WHV infection at least 12 months prior (R; n=11; range 12-18 months), and uninfected animals (U; n=10). Multiple technical replicates per woodchuck sample are included.

2012-04-10 | E-GEOD-36533 | biostudies-arrayexpress

Transcriptomic analysis of the woodchuck model of chronic hepatitis B: Liver gene expression in uninfected, resolved and chronically infected woodchucks

2012-04-11 | GSE36533 | GEO

Transcriptomic analysis of the woodchuck model of chronic hepatitis B: Spleen gene expression in uninfected, resolved and chronically infected woodchucks

2012-04-11 | GSE36544 | GEO

Transcriptomic analysis of the woodchuck model of chronic hepatitis B: Kidney gene expression in uninfected, resolved and chronically infected woodchucks

2012-04-11 | GSE36541 | GEO