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Chunk #53 — MATERIALS AND METHODS — Gene expression analyses

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Musculocontractural Ehlers-Danlos syndrome and neurocristopathies: dermatan sulfate is required for Xenopus neural crest cells to migrate and adhere to fibronectin.
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Two publically available datasets, which comprised 498 neuroblastoma tumors (Wang et al., 2014) and 44 metastatic melanomas (Bogunovic et al., 2009), respectively, were obtained from the NCBI GEO website (http://www.ncbi.nlm.nih.gov/geo/; accession numbers GSE62564 and GSE19234, respectively). Ranked gene lists of the correlations between all genes and DSE expression were produced using Pearson correlations. A gene set enrichment analysis (GSEA; Subramanian et al., 2005) was subsequently performed on the ranked gene lists using the c2.v5 curated gene set collection available from the Molecular Signatures Database (MsigDB; broad.mit.edu/gsea/msigdb).