GEO DataSets

(Submitter supplied) Canine cutaneous histiocytoma (CCH) is a tumor originating from dermal Langerhans cells, especially affecting young dogs. The common spontaneous regression of CCH makes it an interesting model in comparative oncology research. Previous studies have indicated that anti-tumor immune responses may be involved but details remain speculative to date. Here, we asked which specific immuno-oncological dynamics underlie spontaneous regression of CCH on mRNA and protein levels. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by array

Platform:

GPL32796

21 Samples

Download data: RCC, TXT

(Submitter supplied) Canine cutaneous histiocytoma (CCH) is a tumor originating from dermal Langerhans cells, especially affecting young dogs. The common spontaneous regression of CCH makes it an interesting model in comparative oncology research. Previous studies have indicated that anti-tumor immune responses may be involved but details remain speculative to date. Here, we asked which specific immuno-oncological dynamics underlie spontaneous regression of CCH on mRNA and protein levels. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21400

21 Samples

Download data: TSV

(Submitter supplied) Abstract. The use of large animal spontaneous models of solid cancers, such as dogs with osteosarcoma (OS), can help develop new cancer immunotherapy approaches, including chimeric antigen receptor (CAR) T cells. Therefore, the goal of the present study was to generate canine CAR T cells targeting the B7-H3 (CD276) co-stimulatory molecule overexpressed by several solid cancers, including OS and glioma in both humans and dogs, and to assess their ability to recognize B7-H3 expressed by canine OS cell lines or by canine tumors in xenograft models. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24229

9 Samples

Download data: TXT

(Submitter supplied) We used single-cell RNA sequencing to characterize the heterogeneity of canine osteosarcoma (OS) tumors.

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25760

8 Samples

Download data: MTX, TSV

(Submitter supplied) 3' RNA-Seq and direct RNA hybridisation are conceptually different approaches for high throughput transcriptome analysis. The former generates next-generation sequencing libraries by targeting and amplifying 3'-end sequences of 60 to 80 nucleotides in length, whereas the latter quantifies transcripts of 800 pre-selected genes. Since both methods are applicable to short mRNA fragments, they are thought to allow for transcriptome analyses from formalin-fixed, paraffin-embedded (FFPE) archival tissue containing partially degraded RNA. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21400

10 Samples

Download data: TSV

(Submitter supplied) Canine cutaneous histiocytoma (CCH) is a tumor originating from dermal Langerhans cells, especially affecting young dogs. The common spontaneous regression of CCH makes it an interesting model in comparative oncology research. Previous studies have indicated that anti-tumor immune responses may be involved but details remain speculative to date. Here, we asked which specific immuno-oncological dynamics underlie spontaneous regression of CCH on mRNA and protein levels. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by array

Platform:

GPL32796

10 Samples

Download data

(Submitter supplied) 3' RNA-Seq and direct RNA hybridisation are conceptually different approaches for high throughput transcriptome analysis. The former generates next-generation sequencing libraries by targeting and amplifying 3'-end sequences of 60 to 80 nucleotides in length, whereas the latter quantifies transcripts of 800 pre-selected genes. Since both methods are applicable to short mRNA fragments, they are thought to allow for transcriptome analyses from formalin-fixed, paraffin-embedded (FFPE) archival tissue containing partially degraded RNA. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by array

Platform:

GPL34305

25 Samples

Download data: RCC

(Submitter supplied) 3' RNA-Seq and direct RNA hybridisation are conceptually different approaches for high throughput transcriptome analysis. The former generates next-generation sequencing libraries by targeting and amplifying 3'-end sequences of 60 to 80 nucleotides in length, whereas the latter quantifies transcripts of 800 pre-selected genes. Since both methods are applicable to short mRNA fragments, they are thought to allow for transcriptome analyses from formalin-fixed, paraffin-embedded (FFPE) archival tissue containing partially degraded RNA. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21400

25 Samples

Download data: TSV

(Submitter supplied) We found piRNAs with different lengths represented the predominant small RNA species in oocytes from the 12 explored species, except mouse. We found endo-siRNAs resulted from the truncated Dicer isoform were mouse-specific, and os-piRNAs associating with PIWIL3 in human oocytes are widespread in mammals and are typically with low levels of the 2’-3’-O-methylation. The sequences of many highly expressed piRNA clusters are fast-evolving compared with their syntenic genomic locations, and the TE families distributing in the conserved piRNA clusters are various between species.

Organism:

Canis lupus familiaris

Type:

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

Platform:

GPL25760

8 Samples

Download data

(Submitter supplied) We found piRNAs with different lengths represented the predominant small RNA species in oocytes from the 12 explored species, except mouse. We found endo-siRNAs resulted from the truncated Dicer isoform were mouse-specific, and os-piRNAs associating with PIWIL3 in human oocytes are widespread in mammals and are typically with low levels of the 2’-3’-O-methylation. The sequences of many highly expressed piRNA clusters are fast-evolving compared with their syntenic genomic locations, and the TE families distributing in the conserved piRNA clusters are various between species.

Organism:

Macaca fascicularis; Oryctolagus cuniculus; Cricetulus griseus; Mesocricetus auratus; Mus musculus; Danio rerio; Homo sapiens; Canis lupus familiaris; Sus scrofa domesticus; Cavia porcellus; Capra hircus; Rattus norvegicus

Type:

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

12 related Platforms

138 Samples

Download data

(Submitter supplied) To investigate the role of hypoxia treatment on the metabolic profiles of canine glioma cells We then performed reduce representation bisulfite sequencing on 3 unique canine cell lines and correlated with functional assays

Organism:

Canis lupus

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL33062

18 Samples

Download data: BEDGRAPH

(Submitter supplied) The context-dependent correlation between mRNA and protein abundance has long been debated. RNA sequencing (RNA-seq), a high-throughput, commonly used method for analyzing transcriptional dynamics and identifying biomarkers, leaves questions about whether we can translate RNA-seq-identified gene signatures directly to protein changes. In this study, we utilized a set of 17 widely assessed immune and wound healing mediators in the context of canine Volumetric Muscle Loss (VML) to investigate the correlation of mRNA and protein abundance. more...

Organism:

Canis lupus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33062

77 Samples

Download data: TXT

(Submitter supplied) We found that canine meningiomas can be classified molecularly, and the aggressive group of tumors in canines is similar to human MenG C tumors. This aggressive class exhibits chromosomal instability, cell cycle activation, and increased MKI67 expression. Further studies of canine meningiomas in larger cohorts might help advance treatment options for both canines and humans.

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27015

62 Samples

Download data: TXT

(Submitter supplied) Canine adipose-derived mesenchymal stem cells (cAD-MSCs) show therapeutic promise for their regenerative potential, particularly in their secretome. However, concerns arise regarding the impact of in vitro cultivation need for storing therapeutic doses, prompting this study to comprehensively explore the impact of in vitro aging on gene expression and secretome composition. The study involved collecting abdominal adipose tissue samples from nine healthy female dogs, from which cAD-MSCs were extracted and cultured. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by RT-PCR

Platform:

GPL34182

18 Samples

Download data: XLSX

(Submitter supplied) Naturally occurring canine invasive urinary carcinoma (iUC) closely mimics human high grade iUC in terms of age of onset, pathology, cellular and molecular features, metastatic profiles, and treatment response . Shetland sheepdogs (Shelties), the focus of this study, are a small herding breed and popular family pet. Multiple studies demonstrate their extraordinary disease risk, with one survey reporting that of 3359 Shelties, iUC comprised 12% of all Sheltie cancer diagnoses, which is six times the expected rate of 2% for all dogs. more...

Organism:

Canis lupus familiaris

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL16540

8 Samples

Download data: NARROWPEAK, WIG

(Submitter supplied) Pet dogs with oral melanoma were treated in a dose-escalation trial with collagen-anchored interleukin-2 and interleukin-12 following a single 9Gy dose of radiation therapy. Dogs that progressed during, or after, treatment and were ultimately euthanized had tissue collected from primary and metastatic tumors to analyze gene expression and assess mechanisms of resistance to this therapy.

Organism:

Canis lupus familiaris

Type:

Expression profiling by array

Platform:

GPL32796

19 Samples

Download data: CSV, TXT

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

Organism:

Canis lupus familiaris; Mus musculus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL24247 GPL25760

18 Samples

Download data: TXT

(Submitter supplied) Adult mammals are incapable of multi-tissue regeneration and augmentation of this potential may drastically shift current therapeutic paradigms. Here, we found that a common co-receptor of IL-6 cytokines, glycoprotein 130 (gp130), serves as a major nexus integrating various context-specific signaling inputs to either promote regenerative outcomes or aggravate disease progression. Via genetic and pharmacological experiments in vitro and in vivo, we demonstrated that a signaling tyrosine 814 (Y814) within gp130 serves as a major cellular stress sensor. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25760

2 Samples

Download data: TXT

(Submitter supplied) Recently, exosome has been treated as a key mechanism for cell-to-cell communication. We thus demonstrated the roles of exosomes for the encoding messages between primary tumors and metastases. To investigate the difference between pTDE miRNA (primary tumor-derived exosomal miRNA) and mDE miRNA (metastases-derived exosomal miRNA), we isolated exosomal miRNA from each cell lines. Next, we performed small RNA sequencing for miRNA profiling. more...

Organism:

Canis lupus familiaris

Type:

Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL25760 GPL27015

4 Samples

Download data: TXT

(Submitter supplied) The transcription factor NRSF/REST represses many vertebrate neuronal genes in non-neuronal cells by binding to 3 distinct motif classes, which are the canonical 21bp NRSEs, longer non-canonical sites and solo half-sites. We used ChIP-seq in four mammalian species to determine the evolution of the NRSF binding repertoire. We show that while some NRSEs are deeply conserved, genes with several NRSEs show evidence of compensatory site turnover, suggesting that the association of the transcription factor to its target gene is more important than the specific binding site. more...

Organism:

Canis lupus familiaris; Equus caballus; Mus musculus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL21401 GPL19057 GPL21400

9 Samples

Download data: TXT