biostudies-arrayexpressChristophe RACHEZMus musculushttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-15194Expression profiling by high throughput sequencing in Bi-potential Murine Embryonic Liver cells (BMEL cells). Three clones (TKO1, TKO2, TKO3) of BMEL TKO cells invalidated for the expression of the three HP1 isoforms (Cbx1-/-; Cbx3-/-; Cbx5-/-), compared to three clones (Het1, Het32, Het35) of BMEL Het cells (Cbx1+/+; Cbx3+/+; Cbx5+/-) expressing HP1 as controls. Expression profiling was performed on total cell extracts, on cytosolic RNA and on chromatin-enriched RNA.biostudies-arrayexpressSequencing - Library sequencing was performed by Novogene Co, Ltd, as Paired End 150 sequencing (30G raw data/sample).Nucleic Acid Extraction - Total RNA was extracted out of nucleosol, chromatin, or total cells by guanidinium thiocyanate-phenol-chloroform extraction followed by proteinase K and Dnase I treatment.Library Construction - Total RNA library preparation was performed by Novogene Co., Ltd, as a lncRNA sequencing service, including lncRNA directional library preparation with rRNA depletion (Ribo-Zero Magnetic Kit)Sample Collection - Cytosolic and chromatin-enriched fractions were obtained by sequential lysis and centrifugation steps giving a cytosolic fraction, followed by nuclei lysis and centrifugation giving a nuclear soluble fraction and a chromatin pellet.OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesData Transformation - Bigwig files were generated from BAM files with bamCoverage (parameter: –normalizeUsing CPM) from Deeptools (v3.1.3).Sequence Alignment - Mapping was carried out with STAR (v2.6.0b) (parameters: –outFilterMismatchNmax 1 – outSAMmultNmax 1 –outMultimapperOrder Random –outFilterMultimapNmax 30) on Mus musculus mm10 genome.MetabolomicsUnknownTranscriptomicsGenomicsProteomicsIllumina NovaSeq 6000RNA-seq of total RNAMus musculusChristophe RACHEZfalseRNAseq of BMEL cell lines invalidated or not for the expression of the three HP1 isoforms (CBX1, CBX3, CBX5)Expression profiling by high throughput sequencing in Bi-potential Murine Embryonic Liver cells (BMEL cells). Three clones (TKO1, TKO2, TKO3) of BMEL TKO cells invalidated for the expression of the three HP1 isoforms (Cbx1-/-; Cbx3-/-; Cbx5-/-), compared to three clones (Het1, Het32, Het35) of BMEL Het cells (Cbx1+/+; Cbx3+/+; Cbx5+/-) expressing HP1 as controls. Expression profiling was performed on total cell extracts, on cytosolic RNA and on chromatin-enriched RNA.2026-03-31T00:00:00Z2026-03-31T01:03:47.056Z2025-06-09T11:09:32.178ZE-MTAB-15194ERP173145EFO_0002944EFO_0004170EFO_0009653EFO_0004917EFO_0005518EFO_0003816EFO_0004184