{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Jan Kubovčiak"],"organism":["Homo sapiens"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-16634"],"description":["The goal is to identify differntially expressed genes in multifocal osteomyelitis (CRMO) neutrophils to understand the mechanism of neutrophil dysregulation contributing to CRMO development."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sample Collection - Isolation of neutrophils was performed according to the protocol dx.doi.org/10.17504/protocols.io.dm6gpzq51lzp/v1 from approx. 7-9 ml of blood sample","Library Construction - Libraries were prepared with SMART-seq total RNA single cell (ZapR mammalian, 634360) kit according to manufacturer's instructions.","Nucleic Acid Extraction - Isolation of total RNA from approx. 1-2 ml neutrophil solution was performed using R1055 Quick-RNA Miniprep Kit https://zymoresearch.eu/products/quick-rna-miniprep-kit according to manufacturer instruction, RNA was eluted with 50μl of Nuclease free water.","Sequencing - Libraries were sequenced using the Illumina NextSeq® 2000 instrument using a P2 100 X-LEAP SBS kit with cDNA read length of 122 nt (single-end)"],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Sequence Alignment - For subsequent read processing, a bioinformatic pipeline nf-core/rnaseq version 3.17 was used. Individual steps included removing sequencing adaptors and low-quality reads with Trim Galore!, mapping to reference genome GRCh38 (Ensembl annotation version 113) with STAR and quantifying expression on gene level based on mapped fragments with Salmon.","Data Transformation - Reads were mapped to reference genome GRCh38 (Ensembl annotation version 113) with STAR and expression on gene level was quantified based on mapped fragments with Salmon."],"omics_type":["Metabolomics","Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["NextSeq 2000"],"study_type":["RNA-seq of coding RNA"],"species":["Homo sapiens"],"pubmed_authors":["Nataliia Pavliuchenko","Jan Kubovčiak","Tomáš Brdička"],"additional_accession":[]},"is_claimable":false,"name":"Transcriptomic profiling of neutrophils from patients with chronic recurrent multifocal osteomyelitis (CRMO) and healthy age-matched controls","description":"The goal is to identify differntially expressed genes in multifocal osteomyelitis (CRMO) neutrophils to understand the mechanism of neutrophil dysregulation contributing to CRMO development.","dates":{"release":"2026-09-18T00:00:00Z","modification":"2026-09-18T14:14:00.663Z","creation":"2026-02-10T09:51:44.31Z"},"accession":"E-MTAB-16634","cross_references":{"EFO":["EFO_0002944","EFO_0004170","EFO_0004917","EFO_0005518","EFO_0003816","EFO_0003738","EFO_0004184"]}}