Here we describe single-cell corrected long-read sequencing (scCOLOR-seq), which enables error correction of barcode and unique molecular identifier oligonucleotide sequences and permits standalone cDNA nanopore sequencing of single cells. Barcodes and u
Single-cell RNA sequencing (scRNA-seq) is a key technique for the analysis of cell-to-cell heterogeneity and projects aiming at analyzing the transcriptome of all cells from complex organisms have been initiated (e.g., Human Cell Atlas1, Tabula Muris2). While droplet-based high throughput scR...
Sequencing of nucleic acids with nanopores has emerged as a powerful tool offering rapid readout, high accuracy, low cost and portability. This label-free method for sequencing at the single-molecule level is an achievement on its own. However, nanopores also show promise for the technologically ...
Combining single-cell RNA sequencing with Nanopore long-read sequencing enables isoform-level analysis in single cells. However, due to the higher error rate in Nanopore reads, the demultiplexing of cell barcodes and Unique molecular Identifiers (UMIs) can be challenging. This tool enables the accur...
[2] William Stephenson et al, Direct detection of RNA modifications and structure using single-molecule nanopore sequencing, Cell Genomics, 2022, https://doi.org/10.1016/j.xgen.2022.100097 [3] Daniel Garalde et al, Highly parallel direct RNA sequencing on an array of nanopores, Nature Methods,...
scNanoGPS is a computational toolkit for analyzing high throughput single cell nanopore sequencing data to detect Genotypes and Phenotype Simultaneously from same cells. scNanoGPS includes 5 major steps: 1) NanoQC to perform quality control of the raw seqeucning data; 2) Scanner to scan and fil...
Figure 1. The MinION sequencing device DNA sequencing is performed by adding the sample to the flowcell. When DNA molecules pass through or near the nanopore, there will be a change in the magnitude of the current in the nanopore, which is measured by a sensor. The data streams are passed...
2. Porubsky, D. et al. Fully phased human genome assembly without parental data using single-cell strand sequencing and long reads. Nat. Biotechnol. 39, 302–308 (2021). 3. Guarracino, A., Heumos, S., Nahnsen,...
As well as hearing how nanopore sequencing is being used to investigate the genomic aetiology of complex neurological disorders, we found out howDr Benjamin C. Reiner(University of Pennsylvania, USA) is using the technology to investigate the effects of neurological treatments at the single-cell lev...
et al. Fully phased human genome assembly without parental data using single-cell strand sequencing and long reads. Nat. Biotechnol. 39, 302–308 (2021). 3. Guarracino, A., Heumos, S., Nahnsen, S., Prins, P. & Garrison, E. ODGI: understanding pangenome graphs. Bioinformatics 38, ...