Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Geodia barretti whole genome de novo sequencing

ABSTRACT: Geodia barretti whole genome de novo sequencing

PROVIDER: PRJEB58046 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other
	ERR10857202.fastq.gz	Fastqsanger.gz
	ERR10857204.fastq.gz	Fastqsanger.gz
	ERR10857206.fastq.gz	Fastqsanger.gz
	ERR10857208.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 8

Similar Datasets

Whole Genome Study for de novo Mutation Rates

Project description:Whole Genome Study for de novo Mutation Rates

| PRJNA307291 | ENA

Project description:Geodia barretti (Geodia barretti)

| PRJEB96786 | ENA

odGeoBarr1

Project description:Geodia barretti (Geodia barretti) genome assembly, odGeoBarr1

| PRJEB96345 | ENA

Aspergillus fumigatus de novo genome assembly

Project description:Aspergillus fumigatus de novo genome assembly

| PRJEB59410 | ENA

deCODE Genetics whole-genome de novo variants

Project description:de novo mutations identified in deCODE's whole-genome sequencing of 15,220 Icelanders

2017-01-01 | PRJEB15198 | EVA

Project description:Geodia barretti (Geodia barretti) genome assembly, odGeoBarr1, alternate haplotype

| PRJEB96785 | ENA

Dnmt1 has de novo activity targeted to transposable elements

Project description:DNA methylation plays a critical role in development, particularly in repressing retrotransposons. The mammalian methylation landscape is dependent on the combined activities of the canonical maintenance enzyme Dnmt1 and the de novo Dnmts, 3a and 3b. Here we demonstrate that Dnmt1 displays de novo methylation activity in vitro and in vivo with specific retrotransposon targeting. We used whole-genome bisulfite and long-read Nanopore sequencing in genetically engineered methylation depleted embryonic stem cells to provide an in-depth assessment and quantification of this activity. Utilizing additional knockout lines and molecular characterization, we show that Dnmt1's de novo methylation activity depends on Uhrf1 and its genomic recruitment overlaps with targets that enrich for Trim28 and H3K9 trimethylation. Our data demonstrate that Dnmt1 can de novo add and maintain DNA methylation, especially at retrotransposons and that this mechanism may provide additional stability for long-term repression and epigenetic propagation throughout development.

2021-06-29 | PXD025736 | Pride

Optimization of protocols for detection of de novo protein synthesis in whole blood samples via azide-alkyne cycloaddition

Project description:Aberrant protein synthesis and protein expression are a hallmark of many disorders ranging from cancer Aberrant protein synthesis and protein expression are a hallmark of many disorders ranging from cancer to neuropsychiatry. Blood-based biomarkers indicative of changes in proteomes have long been held to be potentially useful with respect to disease prognosis and treatment. However, most effort has been focused on unlabelled plasma proteomics which includes non-myeloid origin proteins and no method of dynamically tagging acute changes in proteomes. Herein we report a method for evaluating de novo protein synthesis in whole blood liquid biopsies. Using a modification of the “bioorthogonal noncanonical amino acid tagging” (BONCAT) protocol, rodent whole blood samples were incubated with L-azidohomoalanine (AHA) to allow incorporation of this selectively reactive non-natural amino acid within nascent polypeptides. Overall, we present a rapid and convenient de novo protein synthesis assay usable with whole blood biopsies that can quantify translational change as well as identity of proteins differentially expressed that may be useful for clinical applications

2020-10-08 | PXD019243 | Pride

HGSVC3 - Verkko De Novo Assemblies

Project description:HGSVC3 - Verkko De Novo Assemblies

| PRJEB76276 | ENA

HGSVC3 - hifiasm De Novo Assemblies

Project description:HGSVC3 - hifiasm De Novo Assemblies

| PRJEB83624 | ENA