第16回千葉カルシウム代謝研究会

Gene ontology term enrichments for RNA-Seq data from differentiated TSC2 deletion cell lines and microarray data of patient SEGAs (related to Fig. 2f). (XLSX 27.7 kb

The genome sequence of the eastern woodchuck (Marmota monax) - A preclinical animal model for chronic hepatitis B

The Eastern woodchuck (Marmota monax) has been extensively used in research of chronic hepatitis B and liver cancer because its infection with the woodchuck hepatitis virus closely resembles a human hepatitis B virus infection. Development of novel immunotherapeutic approaches requires genetic information on immune pathway genes in this animal model. The woodchuck genome was assembled with a combination of high-coverage whole-genome shotgun sequencing of Illumina paired-end, mate-pair libraries and fosmid pool sequencing. The result is a 2.63 Gigabase (Gb) assembly with a contig N50 of 74.5 kilobases (kb), scaffold N50 of 892 kb, and genome completeness of 99.2%. RNA sequencing (RNA-seq) from seven different tissues aided in the annotation of 30,873 protein-coding genes, which in turn encode 41,826 unique protein products. More than 90% of the genes have been functionally annotated, with 82% of them containing open reading frames. This genome sequence and its annotation will enable further research in chronic hepatitis B and hepatocellular carcinoma and contribute to the understanding of immunological responses in the woodchuck

Additional file 8: Table S5. of Genomic analysis of the molecular neuropathology of tuberous sclerosis using a human stem cell model

Gene set enrichment analysis of ribosome profiling data (related to Fig. 3d). (XLSX 11.1 kb

Additional file 2: Figure S2. of Genomic analysis of the molecular neuropathology of tuberous sclerosis using a human stem cell model

Loss of TSC2 triggers expression changes related to inflammatory response, metabolism, and neuronal function. (PDF 1.15 mb

Additional file 1: Figure S1. of Genomic analysis of the molecular neuropathology of tuberous sclerosis using a human stem cell model

Deregulated expression of neuronal and glial markers in the absence of TSC2. (PDF 2.73 mb

Additional file 10: Table S7. of Genomic analysis of the molecular neuropathology of tuberous sclerosis using a human stem cell model

RNA-Seq and ribosome profiling data of differentiated TSC2 wild-type and homozygous deletion cell lines treated with mTOR inhibitors (related to Fig. 4). (XLSB 7.52 mb

Additional file 9: Table S6. of Genomic analysis of the molecular neuropathology of tuberous sclerosis using a human stem cell model

Gene ontology term enrichments for ribosome profiling data (related to Fig. 3f). (XLSX 11 kb

Additional file 11: Table S8. of Genomic analysis of the molecular neuropathology of tuberous sclerosis using a human stem cell model

Gene sets and associated genes that show after mTOR treatment a reversal of the change in expression detected in untreated TSC2 deletion cells (related to Fig. 4b). (XLSX 25.8 kb