Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ZymoBIOMICS Microbial Community DNA Standard (D6305, lot no. ZRC190633)

ABSTRACT: Nanopore consensus error correction of ribosomal RNA operons

PROVIDER: PRJNA540296 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

ZymoBIOMICS Microbial Community Standard

Project description:Comparison of Nanopore Sequencing Chemistries using ZymoBIOMICS Community Standard

| PRJNA934869 | ENA

Microbial Community Standard

Project description:Nanopore Adaptive Sampling: Zymobiomics Microbial Community Standards Sequenoscope Tool Comparison Study

| PRJNA1051081 | ENA

ZymoBIOMICS Gut Microbiome Standard

Project description:Nanopore long reads (Kit 9 and Q20+) for the Zymo standard

| PRJNA804004 | ENA

Healthy human feces and ZymoBIOMICS Microbial Community Standard

Project description:Healthy human feces and ZymoBIOMICS Microbial Community Standard Raw sequence reads

| PRJNA1084203 | ENA

Project description:Haplotype-aware error correction of Simplex nanopore reads

| PRJNA1112538 | ENA

Reads for ZymoBIOMICS HMW DNA Standard

Project description:Sequenced reads for ZymoBIOMICS HMW DNA Standard, including reads from Illumina, Nanopore R9.4.1 and R10.4

| PRJEB48692 | ENA

Project description:Error correction tool benchmark

| PRJNA504496 | ENA

ZymoBIOMICS Gut Microbiome Standard

Project description:ZymoBIOMICS Gut Microbiome Standard Raw sequence reads

| PRJNA804006 | ENA

High throughput error correction using dual nucleotide dimer blocks allows direct single-cell nanopore transcriptome sequencing

Project description:Droplet-based single-cell sequencing techniques have provided unprecedented insight into cellular heterogeneities within tissues. However, these approaches only allow for the measurement of the distal parts of a transcript following short-read sequencing. Therefore, splicing and sequence diversity information is lost for the majority of the transcript. The application of long-read Nanopore sequencing to droplet-based methods is challenging because of the low base-calling accuracy currently associated with Nanopore sequencing. Although several approaches that use additional short-read sequencing to error-correct the barcode and UMI sequences have been developed, these techniques are limited by the requirement to sequence a library using both short- and long-read sequencing. Here we introduce a novel approach termed single-cell Barcode UMI Correction sequencing (scBUC-seq) to efficiently error-correct barcode and UMI oligonucleotide sequences synthesized by using blocks of dimeric nucleotides. The method can be applied to correct both short-read and long-read sequencing, thereby allowing users to recover more reads per cell that permits direct single-cell Nanopore sequencing for the first time. We illustrate our method by using species-mixing experiments to evaluate barcode assignment accuracy and multiple myeloma cell lines to evaluate differential isoform usage and Ewing’s sarcoma cells to demonstrate Ig fusion transcript analysis.

2021-01-31 | GSE162053 | GEO

Error-correction enables use of Oxford Nanopore technology for reference-free transcriptome analysis

Project description:Error-correction enables use of Oxford Nanopore technology for reference-free transcriptome analysis

| PRJEB34849 | ENA