{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Raffaele Palmirotta"],"organism":["Homo sapiens"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-16710"],"description":["To evaluate the in vivo metastatic activity of five different melanoma cell lines (LCP, LCM, WM266, SKMel28 and A375), we completed intra-cardiac injection of 1x106 luminescent cells in NOD-SCID mice. All melanoma cell lines demonstrated a metastatic behaviour following intra-cardiac injection with a variable attitude to produce bone and visceral metastasis. Mice injected with LCP, LCM and WM266 showed a lower total metastatic tumor burden  and increased survival (low metastatic) as compared to A375 and SK-Mel28 (high metastatic). Melanoma cell lines were profiled for gene expression (RNAseq) of 118 genes notably involved in cancer progression and metastasis."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Library Construction - RNA-seq sequencing libraries were constructed by the Ion AmpliSeq™ Library Kit 2.0 (Life Technologies) starting from about 100 ng of the total RNA.","Nucleic Acid Extraction - RNA extraction was performed using the RNeasy Mini Kit (Qiagen) following the manufacturer’s instructions.","Sample Collection - The following melanoma cell lines namely LCP, LCM, WM266, SKMel28 and A375 were pursued from the American Type Culture Collection, USA and cultured in specific standard conditions following the manufacturer’s instructions.","Sequencing - Libraries were templated through the Ion OneTouch™ 2 System and Ion OneTouch™ ES, and then sequenced on the NGS Ion Torrent PGM™ system by using Ion Torrent™ 318 chips (Life Technologies)."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - The number of reads was normalized by total number of counts (counts per million, CPM) plus 0.0001, and all the genes with less than 10 normalized reads were excluded from subsequent analyses.","Sequence Alignment - The initial analysis of RNAseq data from cell lines was performed by using the AmpliSeq RNA plugin available for Ion Torrent sequencing platforms. Moreover, RNAseq data analysis was performed by using Partek Flow platform (Build version 9.0.20.0720; Partek Inc., St. Louis, MO) to achieve the list of differentially expressed genes (DEGs) through the gene set analysis (GSA) method."],"omics_type":["Unknown","Transcriptomics"],"instrument_platform":["AB 310 Genetic Analyzer"],"study_type":["RNA-seq of coding RNA"],"species":["Homo sapiens"],"pubmed_authors":["Raffaele Palmirotta"],"additional_accession":[]},"is_claimable":false,"name":"Gene expression profiling of melanoma cells following intracardiac injection in NOD-SCID mice: a comprehensive in vivo model","description":"To evaluate the in vivo metastatic activity of five different melanoma cell lines (LCP, LCM, WM266, SKMel28 and A375), we completed intra-cardiac injection of 1x106 luminescent cells in NOD-SCID mice. All melanoma cell lines demonstrated a metastatic behaviour following intra-cardiac injection with a variable attitude to produce bone and visceral metastasis. Mice injected with LCP, LCM and WM266 showed a lower total metastatic tumor burden  and increased survival (low metastatic) as compared to A375 and SK-Mel28 (high metastatic). Melanoma cell lines were profiled for gene expression (RNAseq) of 118 genes notably involved in cancer progression and metastasis.","dates":{"release":"2026-02-23T00:00:00Z","modification":"2026-03-03T11:04:27.678Z","creation":"2026-03-03T11:03:57.458Z"},"accession":"E-MTAB-16710","cross_references":{"ENA":["ERP189823"],"EFO":["EFO_0002944","EFO_0004170","EFO_0004917","EFO_0005518","EFO_0003816","EFO_0003738","EFO_0004184"]}}