GEO DataSets

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

Organism:

Homo sapiens; Sus scrofa; Bos taurus; Rattus norvegicus; Equus caballus; 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) RNA-sequencing data across a large number of tissues in mouse, rat, dog, and monkey to evaluate baseline expression levels and establish a preclinical gene expression body atlas

Organism:

Mus musculus; Macaca fascicularis; Rattus norvegicus; Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

4 related Platforms

761 Samples

Download data: XLSX

(Submitter supplied) Modeling molecular changes in breast cancer with naturally occurring canine mammary tumors and cross-organism analysis enables resolution of malignancy-specific processes.

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16540

89 Samples

Download data: CSV, TXT

(Submitter supplied) Osteosarcoma is an aggressive tumor of the bone that primarily affects young adults and adolescents. Osteosarcoma is characterized by genomic chaos and heterogeneity. While inactivation of tumor suppressor p53 TP53 is nearly universal other high frequency mutations or structural variations have not been identified. Despite this genomic heterogeneity, key conserved transcriptional programs associated with survival have been identified across human, canine and induced murine osteosarcoma. more...

Organism:

Canis lupus familiaris; Homo sapiens

Type:

Methylation profiling by high throughput sequencing

Platforms:

GPL16540 GPL11154

68 Samples

Download data: BED, TXT, XLSX

(Submitter supplied) Intrinsic biological fluctuation and/or measurement error can obscure the association of gene expression patterns between RNA and protein levels. Appropriate normalisation of reverse-transcription quantitative PCR (RT-qPCR) data can reduce technical noise in transcript measurement, thus uncovering such relationships. The accuracy of gene expression measurement is often challenged in the context of cancer due to its genetic instability and ‘splicing weakness’. Here we sequenced the poly(A) cancer transcriptome of canine osteosarcoma using mRNA-Seq. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16540

11 Samples

Download data: TXT

(Submitter supplied) Purpose:We used transcriptome sequencing to characterize CL function during diestrus in non-pregnant female dogs. The aim of this study was to identify genes (and their respective pathways) that are differentially expressed (DE) during diestrus in order to obtain a broader understanding of CL function and developmental control. Methods:The CL were obtained from non-pregnant bitches (n=30) on days 10, 20, 30, 40, 50 and 60 (n=3/group) post-ovulation (p.o.). more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16540

18 Samples

Download data: XLSX

(Submitter supplied) Characterizing the evolutionary history of a gene’s expression profile is a critical component for understanding the relationship between genotype, expression, and phenotype. However, it is not well-established how best to distinguish the different evolutionary forces acting on gene expression. Here, we use RNA-seq across 7 tissues from 17 mammalian species to show that expression evolution across mammals is accurately modeled by the Ornstein-Uhlenbeck (OU) process. more...

Organism:

Dasypus novemcinctus; Canis lupus familiaris; Mustela putorius furo; Oryctolagus cuniculus; Monodelphis domestica

Type:

Expression profiling by high throughput sequencing

5 related Platforms

33 Samples

Download data: TXT

(Submitter supplied) The threat of viral pandemics demands a comprehensive understanding of evolution at the host-pathogen interface. Here, we systematically show that the accessibility of adaptive mutations in influenza nucleoprotein at fever-like temperatures is mediated by host chaperones. Particularly noteworthy, we observe that the Pro283 nucleoprotein variant, which is conserved across human flu strains, confers resistance to the MxA antiviral-restriction factor, and critically contributed to the pathogenicity of the 1918 pandemic flu, is rendered unfit by host chaperone depletion. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16540

12 Samples

Download data: TXT

(Submitter supplied) The retinal transcriptome of two non-allelic forms of retinitis pigmentosa (RP) in dogs, RCD1 and XLPRA2, was analyzed at clinically relevant advanced stages of the two diseases and compared to that of adult normal dogs.

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16540

9 Samples

Download data: XLS

(Submitter supplied) DNA methylation in sperm is among the most important factors shaping evolution of the mammalian genome. By directly altering germline mutation rates, the DNA methylation system has shaped the CpG landscape of mammalian genomes, resulting in the CpG island phenomenon. Yet little is known about how this system itself has co-evolved with its substrate during mammalian evolution. We analyzed full-genome single-CpG DNA methylation profiles in sperm from human, chimp, gorilla, rhesus, mouse, rat and dog. more...

Organism:

Gorilla gorilla; Rattus norvegicus; Canis lupus familiaris

Type:

Methylation profiling by high throughput sequencing

Platforms:

GPL18694 GPL21650 GPL16540

12 Samples

Download data: TXT

(Submitter supplied) Predicting and constraining RNA virus evolution require understanding the molecular factors that define the mutational landscape accessible to these pathogens. RNA viruses typically have high mutation rates, resulting in frequent production of protein variants with compromised biophysical properties. Their evolution is necessarily constrained by the consequent challenge to protein folding and function. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16540

15 Samples

Download data: TXT

(Submitter supplied) In a rare subtype of XX Disorder of Sex Development (DSD), individuals are negative for SRY, the testis determining factor on the Y chromosome, yet develop testes or ovotestes, and both of these phenotypes occur in the same family. This is a naturally occurring disorder in humans (Homo sapiens) and dogs (C. familiaris), and phenotypes in the canine XX DSD model are strikingly similar to those in this type of human XX DSD. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL21400 GPL16540

55 Samples

Download data: DIFF, GTF, TXT

(Submitter supplied) We previously described a population of lymphoid progenitor cells (LPCs) in canine B-cell lymphoma defined by retention of the early progenitor markers CD34 and CD117 and slow proliferation molecular signatures that persist in the xenotransplantation setting. We examined whether valspodar, a selective inhibitor of the ATP-binding cassette B1 transporter (ABCB1, a.k.a., p-glycoprotein/multidrug resistance protein-1) used in the neoadjuvant setting would sensitize LPCs to doxorubicin and extend the length of remission in dogs with therapy-naive large B-cell lymphoma. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16540

29 Samples

Download data: TXT

(Submitter supplied) Transposable elements (TEs) are self-mobilizing elements that make up a large fraction of mammalian genomes. PIWI proteins and PIWI interacting RNAs (piRNAs) are a part of a system aimed at controlling and preventing TE proliferation. We examined the TE landscape and piRNA repertoires from three non-model Laurasiatherian mammals (dog, horse and big brown bat) with differing TE complements and proliferation patterns to address questions about the evolutionary relationships between piRNAs and TEs. more...

Organism:

Eptesicus fuscus; Canis lupus familiaris; Equus caballus

Type:

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

Platforms:

GPL17229 GPL15545 GPL16540

6 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

Platform:

GPL16540

114 Samples

Download data

(Submitter supplied) Transcriptome analysis of lymphoma samples were performed to assess EGFR and PLAUR/uPAR expression profiles and compare to human tumors from TCGA. Abstract Sarcomas differ from carcinomas in their mesenchymal origin. Therapeutic advancements have come slowly so alternative drugs and models are urgently needed. These studies report a new drug for sarcomas that simultaneously targets both tumor and tumor neovasculature. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16540

29 Samples

Download data: TXT

(Submitter supplied) Transcriptome analysis of hemangiosarcoma samples were performed to assess EGFR and PLAUR/uPAR expression profiles and compare to human tumors from TCGA. Abstract Sarcomas differ from carcinomas in their mesenchymal origin. Therapeutic advancements have come slowly so alternative drugs and models are urgently needed. These studies report a new drug for sarcomas that simultaneously targets both tumor and tumor neovasculature. more...

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16540

51 Samples

Download data: TXT

(Submitter supplied) Trascriptome analysis of osteosarcoma samples were performed

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16540

34 Samples

Download data: TXT

(Submitter supplied) Aim: To identify genes and pathways involved in elimination of scribKD cells by competition. Methods: We carried out mRNA sequencing of MDCK-II cells carrying a tetracycline-inducible scribble shRNA construct.

Organism:

Canis lupus familiaris

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL16540 GPL20988

17 Samples

Download data: TXT