GEO DataSets

(Submitter supplied) Dogs are commonly used models of human inherited retinal disorders. Because the dog retina contains a macula-like region, dogs are susceptible to maculopathies with many shared genetic etiologies with humans. Human macular gene expression has been characterized and provides insight into the underlying basis of macular disease. We sought to compare macular gene expression profiles in dogs and humans and interrogate macular disease-associated genes for differential expression between macula and periphery. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20988

22 Samples

Download data: TXT

(Submitter supplied) To investigate the potential regulatory mechanism of pyogenesis in dogs, we conducted transcriptome sequencing analysis on the uterus of pyogenesis dogs and healthy dogs, and the results showed that there were 11812 differentially expressed genes in pyogenesis dogs compared with healthy dogs, among which 7086 genes were up-regulated in utero and 4726 genes were down-regulated. And most of these genes are involved in immune and inflammatory responses.

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20988

6 Samples

Download data: FASTA, TXT

(Submitter supplied) Purpose: This goal of this study was to explore the important genes and pathways involved in canine lymphoma progression and understand the underlying molecular using RNA-Sequencing. Methods: RNAs acquired from seven pairs of lymphoma and non-lymphoma blood samples were sequenced from different breeds of dogs. Sequencing reads were preprocessed, aligned with the reference genome, assembled and expressions were estimated through bioinformatics approaches. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20988

14 Samples

Download data: TSV

(Submitter supplied) Comparison of mammosphere-derived epithelial cells across breast cancer susceptible and resistant species

Organism:

Rattus norvegicus; Equus caballus; Homo sapiens; Sus scrofa; Bos taurus; Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

8 related Platforms

24 Samples

Download data: CSV

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Methylation profiling by high throughput sequencing

Platforms:

GPL24229 GPL20988 GPL25760

186 Samples

Download data: BW

(Submitter supplied) Dogs have become a valuable model in exploring multifaceted diseases and biology relevant to human health. Despite large-scale dog genome projects producing high-quality draft references, a comprehensive annotation of functional elements is still lacking. We addressed this through integrative next-generation sequencing of transcriptomes paired with five histone marks and DNA methylome profiling across 11 tissue types, deciphering the dog’s epigenetic code by defining distinct chromatin states, super-enhancer and methylome landscapes, and thus showed that these regions are associated with a wide range of biological functions and cell/tissue identity. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL20988 GPL25760

22 Samples

Download data: BW

(Submitter supplied) Dogs have become a valuable model in exploring multifaceted diseases and biology relevant to human health. Despite large-scale dog genome projects producing high-quality draft references, a comprehensive annotation of functional elements is still lacking. We addressed this through integrative next-generation sequencing of transcriptomes paired with five histone marks and DNA methylome profiling across 11 tissue types, deciphering the dog’s epigenetic code by defining distinct chromatin states, super-enhancer and methylome landscapes, and thus showed that these regions are associated with a wide range of biological functions and cell/tissue identity. more...

Organism:

Canis lupus familiaris

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL25760 GPL20988

131 Samples

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(Submitter supplied) To investigate miRNA expression levels, RNA sequencing analysis (RNA-seq) was performed in synovial tissue and compared between the two groups.

Organism:

Canis lupus familiaris

Type:

Non-coding RNA profiling by high throughput sequencing

Platform:

GPL20988

6 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Canis lupus familiaris

Type:

Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platform:

GPL20988

17 Samples

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(Submitter supplied) Human DUX4 and mouse Dux transcription factors are normally expressed in the germ line and early embryonic cells where they activate the cleavage stage genes. The misexpression of DUX4 in skeletal muscles causes Facioscapulohumeral dystrophy (FSHD). In primates and rodents, DUX4 and Dux arose from retrotransposition of the mRNA from the ancestral intron-containing DUXC, which is not found in these species, and whether it has similar roles in the cleavage stage and FSHD as DUX4 and Dux are unknown. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20988

12 Samples

Download data: RDA, XLSX

(Submitter supplied) Human DUX4 and mouse Dux transcription factors are normally expressed in the germ line and early embryonic cells where they activate the cleavage stage genes. The misexpression of DUX4 in skeletal muscles causes Facioscapulohumeral dystrophy (FSHD). In primates and rodents, DUX4 and Dux arose from retrotransposition of the mRNA from the ancestral intron-containing DUXC, which is not found in these species, and whether it has similar roles in the cleavage stage and FSHD as DUX4 and Dux are unknown. more...

Organism:

Canis lupus familiaris

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL20988

5 Samples

Download data: RDA, XLSX

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Mus musculus; Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL17021 GPL20988

28 Samples

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(Submitter supplied) We developed a method using canine osteosarcoma in mouse xenografts to distinguish tumor-derived from host-response exosomal mRNAs. The model allows for the identification of canine osteosarcoma-specific gene signatures by RNA sequencing and a species-differentiating bioinformatics pipeline. An osteosarcoma-associated signature consisting of five gene transcripts was validated in dogs with osteosarcoma. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20988

20 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Canis lupus familiaris

Type:

Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL17403 GPL20988

20 Samples

Download data: BROADPEAK, BW, CEL, CHP

(Submitter supplied) Targeting PRMT5 in canine lymphoma: we characterized expression patterns of PRMT5 in canine lymphomas and correlated these with histological subtypes using tissue microarrays. We characterized expression of PRMT5 in three canine lymphoma-derived cell lines and primary lymph node biopsies. We have demonstrated that inhibition of PRMT5 leads to growth suppression and induction of apoptosis in canine lymphoma cell lines and primary canine lymphoma cells in a time and dose-dependent manner, while selectively decreasing global marks of symmetric dimethylarginine (SDMA) and histone H4 arginine 3 symmetric di-methylation. more...

Organism:

Canis lupus familiaris

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL20988

10 Samples

Download data: BROADPEAK, BW

(Submitter supplied) In dogs as well as humans, lymphoma is the most common hematopoietic malignancy. Furthermore, due to its characteristics, canine lymphoma is recognized as a clinically relevant in vivo model to study the corresponding human disease. Immortalized cell lines are widely used as in vitro models to evaluate novel therapeutic agents and characterize their molecular mechanisms. However, it is known that long-term cultivation leads to clonal selection, genetic instability, and loss of the initial heterogenic character, limiting the usefulness of cell lines as preclinical models. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20988

37 Samples

Download data: TXT

(Submitter supplied) Influenza A virus (IAV) is a segmented negative-sense RNA virus and is the cause of major global epidemics and pandemics. The replication of IAV is complex, involving both transcription and replication, during which three distinct RNA species, namely mRNA, cRNA, and vRNA are generated for all eight genome segments. While understanding IAV replication kinetics is important for drug development and improving vaccine production, current methods for studying IAV kinetics has been limited by the ability to detect all three different RNA species in a scalable manner. more...

Organism:

Canis lupus familiaris; Homo sapiens; Influenza A virus (A/Puerto Rico/8/1934(H1N1))

Type:

Expression profiling by high throughput sequencing

6 related Platforms

61 Samples

Download data: XLSX

(Submitter supplied) Canine osteosarcoma cells were observed to undergo extravasation through intrivital imaging. Then the extravasated cells were isolated and established as sublines and compared to control cells using RNA-seq.

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20988

15 Samples

Download data: CSV

(Submitter supplied) Dogs develop osteosarcoma (OSA) and the disease process closely resembles that of human OSA. OSA has a poor prognosis in both species and disease free intervals and cure rates have not improved in recent years. Gene expression in canine OSAs was compared with non-tumor tissue utilising next generation RNA sequencing. The data provides novel insights into the molecular mechanisms of OSA in high risk breeds. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20988

7 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL20988 GPL21400

36 Samples

Download data: BW, TXT