{"database":"biostudies-arrayexpress","file_versions":[],"scores":null,"additional":{"submitter":["Sayan Deb Dutta"],"organism":["Mus musculus"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/E-MTAB-14734"],"description":["In this study, using the RNAomic approach we revealed the dose-dependent macrophage polarization of tissue-resident macrophages using cationic nanocellulose in vivo. This study will envision a new approach for nanocellulose as a therapeutic vehicle for tissue engineering and regeneration medicine."],"repository":["biostudies-arrayexpress"],"sample_protocol":["Sample Collection - The transcriptome analysis was carried out to evaluate the differentially expressed genes (DEGs) in various experimental groups after 24 hours of treatment. Total RNA extraction from murine macrophage/monocytes (RAW 264.7 cells)","Nucleic Acid Extraction - Total RNA isolation using Trizol method and the RNA purity was quantified using Nanodrop spectrophotometer. Briefly, the RAW 264.7 cells were growth for 24 h, followed by treatment with various compositions up to 24 hours. After 24 hours, the cells were washed with 1x PBS and the total RNA (1 mL of Trizol /6-well/ 200000 cells) was extracted","Library Construction - Poly(A) RNA selection from total RNA, followed by magnetic beads-based separation which ensures highly specific poly(A) enrichment","Sequencing - Poly(A) RNA selection, followed by cDNA amplification by PCR with Illumina Indexing Primer Sets. We applied the QuantSeq 3'-RNA Seq for expression profiling of macrophage polarization in various groups. For this, the library preparation includes the reverse transcription (OligodT priming), followed by removal of the RNA template, second strand synthesis, and purification, which was then PCR amplified by using NextSeq 500 system.","Sample Treatment - The control cells recieved PBS, followed by LPS (100 ng/mL), IL-4 (100 ng/mL), CN (100 ug/mL), and CND (50 ug/mL)","Growth Protocol - The RAW 264.7 cells were cultured in DMEM, supplemented with 10% FBS and 1% antibiotics in a humidified atmosphere."],"figure_sub":["Organization","MINSEQE Score","Assays and Data","Processed Data","MAGE-TAB Files"],"data_protocol":["Data Transformation - Data normalization was carried out using DegSeq2 (ExDEGA) with Reads Per Kilobase of transcript per Million mapped reads (RPKM)"],"omics_type":["Unknown","Transcriptomics","Genomics","Proteomics"],"instrument_platform":["Infinite M Nano, TECAN, Switzerland","NextSeq 500","QIAGEN","Tizol reagent, Sigma-Aldrich"],"study_type":["RNA-seq of coding RNA"],"species":["Mus musculus"],"pubmed_authors":["Sayan Deb Dutta"],"additional_accession":[]},"is_claimable":false,"name":"Effect of functionalized nanocellulose on macrophage polarization","description":"In this study, using the RNAomic approach we revealed the dose-dependent macrophage polarization of tissue-resident macrophages using cationic nanocellulose in vivo. This study will envision a new approach for nanocellulose as a therapeutic vehicle for tissue engineering and regeneration medicine.","dates":{"release":"2025-08-01T00:00:00Z","modification":"2025-01-02T16:15:07.836Z","creation":"2025-01-02T16:15:07.836Z"},"accession":"E-MTAB-14734","cross_references":{"ENA":["ERP167459"],"EFO":["EFO_0002944","EFO_0004170","EFO_0003789","EFO_0005518","EFO_0003816","EFO_0003738","EFO_0004184","EFO_0003969"]}}