IG-28 enables identification and quantification of high-confidence isoforms from large bulk and single-cell full-length cDNA datasets
- 1University of California Santa Cruz
Abstract
The technology to sequence full-length transcriptomes from bulk and single-cell samples has rapidly advanced. As a result, full-length cDNA datasets now reach billions of reads in size which is beyond the capability of most established isoform identification tools. Here, we introduce IG-28 which addresses this challenge with its capability to process and analyze large fl-cDNA datasets fast and using minimal computational resources. In contrast to its predecessor Mandalorion, IG-28 is not limited to bulk fl-cDNA but is capable of parsing, processing, and analyzing single-cell fl-cDNA datasets. It does so in a lightweight, flexible manner, integrating seamlessly with established scRNA-seq analysis workflows. We benchmarked IG-28 against a variety of established and new isoform identification tools using several bulk and a complex single-cell fl-cDNA dataset and found that IG-28 consistently outperformed the other tools by identifying high-confidence public isoforms.
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BibTeX
@misc{calicchio2026ig28,
title = {{IG-28 enables identification and quantification of high-confidence isoforms from large bulk and single-cell full-length cDNA datasets}},
author = {A. Calicchio and A. O. Li and T. Herwadkar and H. E. Mekonen and C. Vollmers},
howpublished = {bioRxiv},
year = {2026},
month = oct,
doi = {10.64898/2026.10.23.761370},
url = {https://www.biorxiv.org/content/10.64898/2026.10.23.761370v1},
note = {CC BY-NC},
}
RIS
TY - UNPB
TI - IG-28 enables identification and quantification of high-confidence isoforms from large bulk and single-cell full-length cDNA datasets
AU - A. Calicchio
AU - A. O. Li
AU - T. Herwadkar
AU - H. E. Mekonen
AU - C. Vollmers
PY - 2026
DA - 2026/10/23
PB - bioRxiv
DO - 10.64898/2026.10.23.761370
UR - https://www.biorxiv.org/content/10.64898/2026.10.23.761370v1
AB - The technology to sequence full-length transcriptomes from bulk and single-cell samples has rapidly advanced. As a result, full-length cDNA datasets now reach billions of reads in size which is beyond the capability of most established isoform identification tools. Here, we introduce IG-28 which addresses this challenge with its capability to process and analyze large fl-cDNA datasets fast and using minimal computational resources. In contrast to its predecessor Mandalorion, IG-28 is not limited to bulk fl-cDNA but is capable of parsing, processing, and analyzing single-cell fl-cDNA datasets. It does so in a lightweight, flexible manner, integrating seamlessly with established scRNA-seq analysis workflows. We benchmarked IG-28 against a variety of established and new isoform identification tools using several bulk and a complex single-cell fl-cDNA dataset and found that IG-28 consistently outperformed the other tools by identifying high-confidence public isoforms.
SN - 2692-8205
ER -