Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Haplotype-resolved assembly and annotation of Malus hybrid cv. 'Flame' and Malus hybrid cv. 'Royalty'

PROVIDER: PRJNA1026659 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR26342619_1.fastq.gz	Fastqsanger.gz
	SRR26342619_2.fastq.gz	Fastqsanger.gz
	SRR26342620_subreads.fastq.gz	Fastqsanger.gz
	SRR26342621_1.fastq.gz	Fastqsanger.gz
	SRR26342621_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

CRISPR-based targeted haplotype-resolved assembly of a megabase region [EPIC]

Project description:Constructing high-quality haplotype-resolved genome assemblies has substantially improved the ability to detect and characterize genetic variants. A targeted approach providing readily access to the rich information from haplotype-resolved genome assemblies will be appealing to groups of basic researchers and medical scientists focused on specific genomic regions. Here, using the 4.5 megabase, notoriously difficult-to-assemble major histocompatibility complex (MHC) region as an example, we demonstrated an approach to construct haplotype-resolved assembly of the targeted genomic region with the CRISPR-based enrichment. Compared to the results from haplotype-resolved genome assembly, our targeted approach achieved comparable completeness and accuracy with reduced computing complexity, sequencing cost, as well as the amount of starting materials. Moreover, using the targeted assembled personal MHC haplotypes as the reference both improves the quantification accuracy for sequencing data and enables allele-specific functional genomics analyses of the MHC region. Given its highly efficient use of resources, our approach can greatly facilitate population genetic studies of targeted regions, and may pave a new way to elucidate the molecular mechanisms in disease etiology.

2022-11-15 | GSE192501 | GEO

CRISPR-based targeted haplotype-resolved assembly of a megabase region [WGBS]

2022-11-15 | GSE192499 | GEO

Humulus lupulus strain:Saaz

Project description:Humulus lupulus cv. Saaz Haplotype-resolved assembly (alternate haplotype)

| PRJDB17945 | ENA

Humulus lupulus strain:Saaz

Project description:Humulus lupulus cv. Saaz Haplotype-resolved assembly (principal haplotype)

| PRJDB17944 | ENA

Transcription profiling by array of wheat cultivars Flame and Longbow responce to Mycosphaerella graminicola

Project description:Mycosphaerella graminicola is the causal agent of Mycosphaerella graminicola infection (STB) disease of wheat. Wheat genotypes vary in their response to this disease. Cultivar (cv.) Longbow is susceptible and cv. Flame is resistant to STB disease, with cv. Flame possessing the STB resistance locus Stb6 that confers resistance to pathogen strain IPO323. Gene expression profiling (conducted using Affymetrix wheat gene chip) identified transcripts that accumulate in leaves of both these wheat cultivars as an early response to M. graminicola strain IPO323 (at 24h post-treatment). At this initial time point, microscopic analysis verified that fungal spores had germinated, but not penetrated the leaves of both genotypes. Results showed that basal defence genes were activated in both the compatible and incompatible interactions. A subset of genes were identified that were more pathogen-responsive in the cv. Flame v. IPO323 incompatible interaction as compared to the cv. Longbow v. IPO323 compatible interaction, including defence genes such as peroxidases, beta-1,3-glucanase, annexin, chitinases, brassinosteroid-associated kinase 1 and a jasmonate-inducible protein.

2014-06-04 | E-MEXP-3584 | biostudies-arrayexpress

Project description:Haplotype-resolved Genome Assembly of Malus domestica 'Red Fuji'

| PRJNA971677 | ENA

Malus domestica cultivar:Gala

Project description:Malus domestica cv. 'Gala' Diploid Genome Assembly Haplotype B

| PRJNA599187 | ENA

Malus domestica cultivar:Gala

Project description:Malus domestica cv. 'Gala' Diploid Genome Assembly Haplotype A

| PRJNA599184 | ENA

RNA-SEQ raw data of apple phlomes at bud breaking stage

Project description:In order to understand the role of phloems of apple dwarfing rootstocks,and investigated the expression differences of dwarfing and vigorous apple stocks in the bud break stage, The phloem tissue at bud break stage(0 DABB(days after buds break) of three apple rootstocks including A1d（a partial GA insensitive mutant of Malus hupehensis ),WT Malus hupehensis and were QZ1(a hybrid of Malus hupensis and a Cylindrical apple variety) were sampled and underwent RNA-Seq analysis.

2024-10-24 | GSE276181 | GEO

Humulus lupulus

Project description:Chromosome scale haplotype resolved genome assembly of hop cv. Apollo

| PRJNA1082089 | ENA