biostudies-arrayexpressKanishk AsthanaHomo sapiensChronoSeq-Toolshttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-15966Time-Tags were mixed 1 through 12. Data was also used for comparison with 10X Genomics 3' Chromium on K562 cells and with Single-Cell RNA-Seq negative control. Cells were not stimulated but maintained inside the ChronoSeq device for sampling. Samples were taken every 10 minutes.biostudies-arrayexpressNucleic Acid Extraction - Oligo-DT beads were used to capture mRNA from lysed Single-Cells inside droplets.Library Construction - Beads are washed once with 6X SSC buffer and then twice with 1.25X RT buffer. Beads were then pooled together for a single RT reaction. very similar to Drop-seq. https://kanishkasthana.github.io/ChronoSeq/protocol_library_preparation_for_dropseq_chronoseq_beads.htmlSequencing - Illumina NovaSeq X 10B on one lane in PE150 configuration with Custom Read 1 primer. 10% PhiX spike in. Mix primers with Illumina PrimersSample Collection - Cells were automatically samples using the ChronoSeq device. 10μl of Time-Tagged beads at 450 beads/μl suspended in lysis buffer were directly mixed with human cells at 600cells/μl. In order 1->12Growth Protocol - K562 grown in suspension in DMEM with 10% FBS and 1%PEN-STREP at 5%CO2 and 37C. https://kanishkasthana.github.io/ChronoSeq/protocol_for_preparing_cells_AdditionalFiltration.htmlOrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesData Transformation - UMIs and gene information were used to generate unique transcripts captured and remove PCR duplicates using Drop-seq tools.Sequence Alignment - hg38 reference used for alignment. Data processed using ChronoSeq-Tools pipeline. https://github.com/kanishkasthana/ChronoSeq-ToolsMetabolomicsUnknownTranscriptomicsGenomicsProteomicsIllumina NovaSeq XRNA-seq of coding RNAHomo sapiensKanishk AsthanafalseBulk K562 cells negative control (QC) for ChronoSeq with no stimulation, all 12 Time-TagsTime-Tags were mixed 1 through 12. Data was also used for comparison with 10X Genomics 3' Chromium on K562 cells and with Single-Cell RNA-Seq negative control. Cells were not stimulated but maintained inside the ChronoSeq device for sampling. Samples were taken every 10 minutes.2025-11-03T00:00:00Z2026-05-27T03:13:30.92Z2025-11-03T16:38:08.214ZE-MTAB-15966ERP183604E-MTAB-15927E-MTAB-15928E-MTAB-15956E-MTAB-15955E-MTAB-15947E-MTAB-15946E-MTAB-15894EFO_0002944EFO_0004170EFO_0003789EFO_0004917EFO_0005518EFO_0003816EFO_0003738EFO_0004184