Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Korean Wolf project

ABSTRACT: Elucidating the Korean wolf genetic affinities through whole-genome sequencing

PROVIDER: PRJEB57591 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR11641173.fastq.gz	Fastqsanger.gz
	ERR11641173_1.fastq.gz	Fastqsanger.gz
	ERR11641173_2.fastq.gz	Fastqsanger.gz
	ERR11641174.fastq.gz	Fastqsanger.gz
	ERR11641174_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 69

Similar Datasets

Analysis of structural diversity in wolf-like canids reveals post-domestication variants

Project description:This study uses a custom made Nimblegen aCGH chip that targeted all segmental duplications in the canine genome to identify associated CNVs. A total of 23 hybridizations were performed in a panel of diverse dogs and a single wolf. This study focuses on the use a custom made Nimblegen aCGH chip to genotype 1,611 dog CNVs in 23 wolf-like canids (4 purebred dogs, one dingo, 15 gray wolves, one red wolf, one coyote and one golden jackal) to identify CNVs that may have arisen after domestication

2014-06-05 | E-GEOD-58195 | biostudies-arrayexpress

Deep Sequencing of Korean Jindo Dog Reveals Evolutionary Trajectory of Coat Color Variations

Project description:The inherent diversity of canines is closely intertwined with the unique color patterns of each dog population. These variations in color patterns are believed to have originated through mutations and selective breeding practices that occurred during and after the domestication of dogs from wolves. To address the significant gaps that persist in comprehending the evolutionary processes that underlie the development of these patterns, we generated and analyzed deep-sequenced genomes of 113 Korean indigenous Jindo dogs that represent five distinct color patterns to identify the associated mutations in CBD103, ASIP, and MC1R. The degree of linkage disequilibrium and estimated allelic ages consistently indicate that the black-and-tan dogs descend from the first major founding population on Jindo island, compatible with the documented literature. We additionally demonstrate that black-and-tan dogs, in contrast to other color variations within the breed, exhibit a closer genetic affinity to ancient wolves from western Eurasia than those from eastern Eurasia. Lastly, population-specific genetic variants with moderate effects were identified, particularly in loci associated with traits underlying body size and behavioral variations, potentially explaining the observed phenotypic diversity based on coat colors. Overall, comparisons of whole genome sequences of each coat color population diverged from the same breed provided an unprecedented glimpse into the properties of evolutionary processes maintaining variation in Korean Jindo dog populations that were previously inaccessible.

2024-04-05 | E-MTAB-13939 | biostudies-arrayexpress

The brain transcriptome of the wolf spider, Schizocosa ocreata

Project description:The goal of this study was to lay the groundwork for comparative transcriptomics of sex differences in the brain of wolf spiders, a non-model organism of the pyhlum Euarthropoda, by generating transcriptomes and analyzing gene expression. To examine differences in sex-differential gene expression, short read transcript sequencing and de novo transcriptome assembly were performed. Messenger RNA (mRNA) was isolated from dissected brain tissue of male and female subadult and mature wolf spiders (Schizocosa ocreata). The data consist of short read sequences for the two different life stages in each sex. Computational analyses on these data include de novo transcriptome assembly, using Trinity and CAP3 assembly suites, and differential expression analysis using the edgeR package. Sample-specific and combined transcriptomes, gene annotations, and differential expression results are described in this data note and are available from associated database submissions.

2021-03-12 | GSE168766 | GEO

Analysis of structural diversity in wolf-like canids reveals post-domestication variants

2014-06-05 | GSE58195 | GEO

Ancient Siberian wolf sequencing

Project description:Ancient Siberian wolf sequencing

| PRJEB7788 | ENA

Whole transcriptomic analysis of Korean osteoarthritis patients.

Project description:A database of genes showing differences in expression in synovium tissues and normal synovium tissues of Korean patients with advanced osteoarthritis was established.

2024-04-30 | GSE254682 | GEO

Transcriptome changes following castration of Korean cattle bulls in longissimus dorsi muscle

Project description:Transcripome of longissimus dorsi muscle was compared between Korean cattle bulls and steers by using a customized bovine Combimatrix microarray containing 10,199 genes. A customized bovine Combimatrix microarray containing 10,199 genes were constructed, and transcripome of longissimus dorsi muscle was compared between Korean cattle bulls (3 bulls) and steers (3 high-marbled and 3 low-marbled steers) by using the microarray hybridzation.

2013-06-30 | E-GEOD-35085 | biostudies-arrayexpress

Long term evaluation of biological effects of Korean Red Ginseng in rat serum

Project description:This study investigated the safety and efficacy of 12-mo administration of Korean Red Ginseng.

2023-03-11 | PXD032036 | Pride

NTRK1 fusions for the therapeutic intervention of Korean patients with colon cancer

Project description:The identification and clinical validation of cancer driver genes are essential to accelerate the translational transition of cancer genomics, as well as to find clinically confident targets for the therapeutic intervention of cancers. Here we identified recurrent LMNA-NTRK1 and TPM3-NTRK1 fusions in Korean patients with colon cancer (3 out of 147, 2%) through next-generation RNA sequencing (RNA-seq). NTRK1 fusions were mutually exclusive oncogenic drivers of colon cancer that were accompanied with in vitro potential of colony formation and in vivo tumorigenicity comparable to KM12, a human colon cancer cell line harboring TPM3-NTRK1 fusion. NTRK1-encoded TrkA protein was prevalent in 11 out of 216 Korean (5.1%) and 28 out of 472 Chinese patients (5.9%) from independent cohorts, respectively. The expression level of TrkA was significantly correlated with NTRK1 fusion (p = 0.0192), which was verified by a fluorescence in situ hybridization (FISH). Korean patients with TrkA-positive colon cancer had a marginal but significant shorter overall survival time than TrkA-negative colon cancer [hazard ratio (HR) = 0.5346, 95% confidential interval (CI) = 0.2548-0.9722, p = 0.0411]. In addition, KM12 cell line was sensitive to selective TrkA inhibitors. These results demonstrate that NTRK1 fusion is granted as a clinically relevant target for therapeutic intervention of colon cancer.

2021-07-31 | GSE180440 | GEO

Canis lupus strain:Wolf

Project description:Canis lupus strain:Wolf Transcriptome or Gene expression

| PRJNA353762 | ENA