biostudies-arrayexpressUnknownTranscriptomicsGenomicsProteomicsveronica manicardiNextSeq 500ChIP-seqHomo sapiensHomo sapienshttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-14152The aim of the experiment was to explore the RUNX2 genomic functions in the papillary thyroid carcinoma. To this end, we performed Chromatin Immunoprecipitation followed by deep-sequencing using an antibody against RUNX2, RNA-Polymerase II and Histone Marks (H3K27ac, H3K4me1, H3K4me3) in MDA-T41 thyroid cancer cell line, in order to define the genomic regions bound by this transcription factor.biostudies-arrayexpressSequencing - Sequencing was performed by Illumina Nextseq 500 instrument (High output kit v2, 1x75 cycles)Growth Protocol - MDA-T41 cells were grown in RPMI-1640 supplemented with 1% non-essential amino acids, 10% FBS and 1% penicillin-streptomycin. All cell lines were grown at 37°C/ 5% CO2 and routinely tested for mycoplasma infection.Library Construction - Libraries were obtained starting from 3ng of ChIP and Input samples following ThruPLEX DNA-Seq Kit (Takara Bio Ink) protocol.Nucleic Acid Extraction - ChIP samples were purified with PCR Purification Kit (Qiagen) and eluted in 50ul of Elution Buffer.Sample Collection - 20M cells were collected for Chromatin Immunoprecipitation.OrganizationMINSEQE ScoreAssays and DataMAGE-TAB Filesveronica manicardifalseChIP-seq against RUNX2, RNA-Polymerase II and Histone Marks (H3K27ac, H3K4me1, H3K4me3) in human Papillary Thyroid Cancer cell line (MDA-T41)The aim of the experiment was to explore the RUNX2 genomic functions in the papillary thyroid carcinoma. To this end, we performed Chromatin Immunoprecipitation followed by deep-sequencing using an antibody against RUNX2, RNA-Polymerase II and Histone Marks (H3K27ac, H3K4me1, H3K4me3) in MDA-T41 thyroid cancer cell line, in order to define the genomic regions bound by this transcription factor.2025-12-31T00:00:00Z2025-12-31T02:02:13.684Z2024-06-06T09:47:33.354ZE-MTAB-14152ERP160916E-MTAB-13777EFO_0002944EFO_0004170EFO_0003789EFO_0002692EFO_0005518EFO_0004184