{"database":"GEO","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE344nnn/GSE344124/"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":null,"additional":{"omics_type":["Transcriptomics"],"species":["synthetic construct"," Homo sapiens"," Drosophila melanogaster"],"gds_type":["Expression profiling by high throughput sequencing"],"full_dataset_link":["https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE344124"],"repository":["GEO"],"entry_type":["GSE"],"additional_accession":[]},"is_claimable":false,"name":"Omega-seq: ultra-low-background RNA sequencing with faithful molecular counting and precise transcript-end capture","description":"PCR-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.","dates":{"publication":"2026/08/18"},"accession":"GSE344124","cross_references":{"GSM":["GSM9971081","GSM9971082","GSM9971080","GSM9971108","GSM9971109","GSM9971106","GSM9971107","GSM9971104","GSM9971105","GSM9971102","GSM9971103","GSM9971100","GSM9971089","GSM9971101","GSM9971087","GSM9971088","GSM9971085","GSM9971086","GSM9971083","GSM9971084","GSM9971092","GSM9971093","GSM9971090","GSM9971091","GSM9971115","GSM9971113","GSM9971114","GSM9971078","GSM9971111","GSM9971079","GSM9971112","GSM9971098","GSM9971077","GSM9971110","GSM9971099","GSM9971096","GSM9971097","GSM9971094","GSM9971095"],"GPL":["34457","34698","34284"],"GSE":["344124"],"taxon":["synthetic construct"," Homo sapiens"," Drosophila melanogaster"]}}