GEOapplication/xmlftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE344nnn/GSE344124/primary200OKTranscriptomics synthetic construct Homo sapiensDrosophila melanogasterExpression profiling by high throughput sequencinghttps://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE344124GEOGSEfalseOmega-seq: ultra-low-background RNA sequencing with faithful molecular counting and precise transcript-end capturePCR-based RNA sequencing generates phantom unique molecular identifiers (UMIs) when residual UMI-bearing oligonucleotides reprime during amplification, inflating molecule counts and corrupting relative abundances; non-specific amplification limits sensitivity, and synthetic poly-T tracts disrupt sequencing and obscure transcript 3' ends. This series contains the sequencing data for Omega-seq, a full-length single-cell RNA-seq method that restricts UMI incorporation to reverse transcription using uracil-containing, USER-excisable template-switching oligonucleotides together with a uracil-intolerant polymerase, and that replaces the conventional oligo-dT primer with an Omega-shaped dT primer which relocates the sequencing adapter past the homopolymer tract. The data comprise (i) serial dilutions of human brain total RNA (10, 1 and 0.1 pg) and no-template controls processed in parallel by Omega-seq and FLASH-seq-UMI, with ERCC spike-ins, on Illumina; (ii) FACS-sorted individual Drosophila larval neuroblasts, and pooled neuroblasts and neurons, prepared by both methods; (iii) an oligonucleotide-design comparison of standard versus Omega-shaped dT primers; and (iv) a Nanopore run in which preamplified cDNA from both methods across the same dilution series was barcoded and sequenced on a single flow cell, used to characterise adapter composition and mappability of the preamplification products directly. Processed data are provided as per-library gene-by-cell UMI count matrices. The Nanopore run is deposited here as its eight demultiplexed libraries; reads for which no barcode could be recovered are not included in this Series, and are deposited with the Zenodo record accompanying the publication.2026/08/18GSE344124GSM9971081GSM9971082GSM9971080GSM9971108GSM9971109GSM9971106GSM9971107GSM9971104GSM9971105GSM9971102GSM9971103GSM9971100GSM9971089GSM9971101GSM9971087GSM9971088GSM9971085GSM9971086GSM9971083GSM9971084GSM9971092GSM9971093GSM9971090GSM9971091GSM9971115GSM9971113GSM9971114GSM9971078GSM9971111GSM9971112GSM9971079GSM9971098GSM9971077GSM9971099GSM9971110GSM9971096GSM9971097GSM9971094GSM9971095344573469834284344124 synthetic construct Homo sapiensDrosophila melanogaster