Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Platinum pedigree consortium long-read sequencing

ABSTRACT: Platinum pedigree consortium long-read sequencing

PROVIDER: PRJNA1167350 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Platinum pedigree consortium long-read sequencing

Project description:A familial T2T reference for human de novo mutation and recombination across four generations

| PRJEB86317 | ENA

LocusMasterTE: long-read assisted short-read RNA-seq TE quantification [long]

Project description:LocusMasterTE: long-read assisted short-read RNA-seq TE quantification [long]

| PRJNA935368 | ENA

Pk long read sequencing

Project description:Plasmodium knowlesi long read sequencing

| PRJEB19298 | ENA

Long-read Proteogenomics Internal Standard triggered PRM (LRP-IS-PRM)

Project description:Long-read proteogenomic data was used to create sample-matched protein database for WTC11 sample. This includes many potential alternative protein isoforms (major and minor isoforms) per gene. The IS-PRM method called Tomahto was tested versus DDA to demonstrate improved coverage of isoform-specific peptides. We called this overall method of long-read RNA informed Tomahto targeting LRP-IS-PRM and used it for protein-level evidence of multiple isoforms derived from alternative splicing.

2024-07-17 | PXD050909 | Pride

Long-read Proteogenomics Internal Standard triggered PRM (LRP-IS-PRM)

2024-07-17 | PXD050904 | Pride

Long-Read Beer Metagenomics

Project description:Rapid Long-Read Sequencing of Beer Metagenomes

| PRJEB49187 | ENA

LocusMasterTE: long-read assisted short-read TE quantification [short]

Project description:LocusMasterTE: long-read assisted short-read TE quantification [short]

| PRJNA935371 | ENA

LocusMasterTE: long-read assisted short-read RNA-seq TE quantification [long]

Project description:With an ability to compromise genome integrity, transposable elements (TEs) have significant associations with human diseases. Short-read sequencing has been used to study the expression of TEs; however, the highly repetitive nature of these elements makes multimapping a critical issue. Here we implement LocusMasterTE, an improved quantification method by integrating long-read sequencing. Introducing computed transcript per million(TPM) counts from long-read sequencing as prior distribution during Expectation-Maximization(EM) model in short-read TE quantification, multi-mapped reads are re-assigned to correct expression values. Based on simulated short reads, LocusMasterTE outperforms current quantitative approaches and is significantly favorable in capturing newly inserted TEs. We also verified that TEs quantified by LocusMasterTE clearly related to euchromatins and heterochromatins in cell line samples. With LocusMasterTE we anticipate that more accurate quantification can be performed, allowing novel functions of TEs to be uncovered.

2023-09-01 | GSE225377 | GEO

Synergistic effect of short- and long-read sequencing on functional meta-omics

Project description:Evaluation of short-read-only, long-read-only, and hybrid assembly approaches on metagenomic samples demonstrating how they affect gene and protein prediction which is relevant for downstream functional analyses. For a human gut microbiome sample, we use complementary metatranscriptomic, and metaproteomic data to evaluate the metagenomic-based protein predictions.

2022-02-17 | PXD025505 | Pride

long-read RNA-seq

Project description:long-read RNA-seq

2024-07-17 | OEX00028599 | NODE