{"database": "metadata", "table": "run_metadata", "rows": [[56357, "SRR10956574", "SRX7622790", "SRS6054744", "SRP244262", "PRJNA602818", "Oxidative phosphorylation promotes primary melanoma invasion", "GSE144117", "Transcriptome Analysis", "Dermal invasion is a hallmark of malignant melanoma. The molecular alterations driving the progression of primary melanoma to metastatic disease have been studied extensively  whereas the early progression of non invasive primary melanoma to an invasive state is not well understood. To elucidate the mechanisms underlying the transition from radial to vertical growth  the first step in melanoma invasion  we developed a zebrafish melanoma model in which constitutive activation of ribosomal protein S6 kinase 1 RSK1 drives tumor invasion. Transcriptomic analysis of RSK1 activated tumors identified metabolic changes  including upregulation of genes associated with oxidative phosphorylation. Vertical growth phase human melanoma cells show higher oxygen consumption and preferential utilization of glutamine compared to radial growth phase melanoma cells. Peroxisome proliferator activated receptor gamma coactivator 1a PGC1a has been proposed as a master regulator of tumor oxidative phosphorylation. In human primary melanoma specimens we show that PGC1a protein expression is positively associated with increased tumor thickness and expression of the proliferative marker Ki 67 and the reactive oxygen species ROS scavenger SCARA3. PGC1a depletion modulates cellular processes associated with primary melanoma growth and invasion  including oxidative stress. Our results support a role for PGC1a in mediating glutamine driven OXPHOS to facilitate the invasive growth of primary melanoma. Overall design: Melanomas harvested from MiniCoopR GFP zebrafish n=6 and MiniCoopR myrRSK n=6 zebrafish", null, "pubmed:32142731", null, "MiniCoopR MyrRSK melanoma  rep3", "GSM4280515", null, "source name:MiniCoopR MyrRSK melanoma|genotype:MiniCoopR MyrRSK|tissue:zebrafish melanoma", "MiniCoopR MyrRSK melanoma  rep3", "Reads were aligned using STAR v2.6.1d  Dobin A  Davis CA  Schlesinger F  Drenkow J  Zaleski C  Jha S  Batut P  Chaisson M  Gingeras TR: STAR: ultrafast universal RNA seq aligner. Bioinformatics Oxford  England 2013  29:15 21. Read counting was performed using htseq count v0.6.0 Differential gene expression was performed using Deseq2  Love MI  Huber W  Anders S: Moderated estimation of fold change and dispersion for RNA seq data with DESeq2. Genome biology 2014  15:550. 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