{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Yong Zhou"],"organism":["Mus musculus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-15763"],"description":["This study aimed to identify miRNAs enriched in exosomes that promote osteolytic bone metastasis. We performed miRNA-seq directly on exosomes purified from the culture supernatants of either non-metastatic (NC-LLC) or bone-metastatic (BM-LLC) Lewis lung carcinoma cells. The goal was to profile the miRNA cargo of these tumor-derived exosomes and identify key regulators of intercellular communication. Integrated analysis with mRNA sequencing data from recipient macrophages identified exosomal miR-484 as a critical driver of osteoclast differentiation and bone metastasis."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Nucleic Acid Extraction - Total RNA, including small RNAs, was extracted from the purified exosomes using the miRNeasy Serum/Plasma Kit (Qiagen) according to the manufacturer's instructions.","Sample Collection - Exosomes were collected and purified from the cell culture supernatant of NC-LLC and BM-LLC cells via differential ultracentrifugation.","Growth Protocol - Lewis lung carcinoma (LLC) cells (NC-LLC and BM-LLC) were cultured in Dulbecco's Modified Eagle Medium (DMEM) supplemented with 10% exosome-depleted fetal bovine serum (FBS) at 37°C in a 5% CO₂ atmosphere.","Library Construction - Small RNA libraries were constructed using the NEBNext Multiplex Small RNA Library Prep Kit for Illumina. Briefly, small RNA molecules were ligated to 3' and 5' adapters, reverse transcribed, and amplified by PCR. The final cDNA libraries were size-selected to enrich for fragments containing microRNAs.","Sequencing - The library was sequenced on an Illumina platform using a 50 bp single-end strategy."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Sequence Alignment - Raw sequencing reads were quality-checked with FastQC. Adapter sequences were trimmed using Cutadapt. The cleaned reads were then aligned to the mouse reference genome (GRCm38) and miRBase mature miRNA sequences using Bowtie, allowing for zero mismatches to ensure precise mapping to miRNAs.","Data Transformation - Raw sequencing reads were processed to remove adapters and low-quality bases. The cleaned reads were aligned to the mouse reference genome (GRCm38) using Bowtie. miRNA read counts were obtained by quantifying alignments to mature miRNA sequences from miRBase. The raw count matrix was normalized using the TPM method to generate the processed expression data."],"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Illumina HiSeq 2500"],"study_type":["microRNA profiling by high throughput sequencing"],"species":["Mus musculus"],"pubmed_title":["Exosomal miR-484 Drives Osteolytic Metastasis by Repressing PECAM1 to Reprogram Osteoclastogenesis"],"pubmed_authors":["Zhongkai Tong1, Xiaoxiao Zhu1, Mengqing Hu2, Cenli Wang3, Xiaofei Liang3, Chunli Wu1,Zhenyan Li3, Lin He3, Jian Li3, Zhenyue Ye1, Zhaoxing Dong1#, Yong Zhou1#","Yong Zhou"],"additional_accession":[]},"is_claimable":false,"name":"miRNA-seq of exosomes derived from bone-metastatic lung cancer cells","description":"This study aimed to identify miRNAs enriched in exosomes that promote osteolytic bone metastasis. We performed miRNA-seq directly on exosomes purified from the culture supernatants of either non-metastatic (NC-LLC) or bone-metastatic (BM-LLC) Lewis lung carcinoma cells. The goal was to profile the miRNA cargo of these tumor-derived exosomes and identify key regulators of intercellular communication. Integrated analysis with mRNA sequencing data from recipient macrophages identified exosomal miR-484 as a critical driver of osteoclast differentiation and bone metastasis.","dates":{"release":"2025-12-31T00:00:00Z","modification":"2025-12-31T02:02:53.716Z","creation":"2025-10-17T14:05:05.256Z"},"accession":"E-MTAB-15763","cross_references":{"ENA":["ERP182420"],"Biostudies":["E-MTAB-15762"],"EFO":["EFO_0002944","EFO_0004170","EFO_0003789","EFO_0002896","EFO_0004917","EFO_0005518","EFO_0003816","EFO_0004184"]}}