Search results for "Cripto"

Data from: From cacti to carnivores: improved phylotranscriptomic sampling and hierarchical homology inference provide further insight into the evolu…

2019

Premise of the Study— The Caryophyllales contains ~12,500 species and is known for its cosmopolitan distribution, convergence of trait evolution, and extreme adaptations. Some relationships within the Caryophyllales, like those of many large plant clades, remain unclear and phylogenetic studies often recover alternative hypotheses. We explore the utility of broad and dense transcriptome sampling across the order for resolving evolutionary relationships in Caryophyllales. Methods— We generated 84 transcriptomes and combined these with 224 publicly available transcriptomes to perform a phylogenomic analysis of Caryophyllales. To overcome the computational challenge of ortholog detection in su…

SIFT Texture Description for Understanding Breast Ultrasound Images

2014

Texture is a powerful cue for describing structures that show a high degree of similarity in their image intensity patterns. This paper describes the use of Self-Invariant Feature Transform (SIFT), both as low-level and high-level descriptors, applied to differentiate the tissues present in breast US images. For the low-level texture descriptors case, SIFT descriptors are extracted from a regular grid. The high-level texture descriptor is build as a Bag-of-Features (BoF) of SIFT descriptors. Experimental results are provided showing the validity of the proposed approach for describing the tissues in breast US images.

Exosomes in NSCLC as a source of biomarkers

2019

Abstract Background Exosomes are small membranous vesicles (around 40-130 nm), that have been detected in different biological samples, that play a key role in NSCLC and being relevant in stem cell differentiation as well. The main objective of this study was to analyze the exosomes cargo from NSCLC cell cultures growth in monolayer (2D) and suspension conditions (3D, lung tumorespheres). Methods Cultures were established from NSCLC resected patients and cell lines. Exosomes isolation was performed by ultracentrifugation. Characterization was carried out by NTA, electron microscopy, immunoblot and flow cytometry. Mutational status of EGFR and RAS genes was analyzed by BEAMing dPCR. Transcri…

Repurposing of the ALK inhibitor crizotinib for acute leukemia and multiple myeloma cells

2021

Crizotinib was a first generation of ALK tyrosine kinase inhibitor approved for the treatment of ALK-positive non-small-cell lung carcinoma (NSCLC) patients. COMPARE and cluster analyses of transcriptomic data of the NCI cell line panel indicated that genes with different cellular functions regulated the sensitivity or resistance of cancer cells to crizotinib. Transcription factor binding motif analyses in gene promoters divulged two transcription factors possibly regulating the expression of these genes, i.e., RXRA and GATA1, which are important for leukemia and erythroid development, respectively. COMPARE analyses also implied that cell lines of various cancer types displayed varying degr…

A novel nutrient blend mimics calorie restriction transcriptomics differentially in multiple tissues of mice

2017

Identification of caloric restriction mimetics (CRMs), compounds that mimic the beneficial effects of caloric restriction (CR) without restriction of dietary energy would be an advancement in anti-aging science. The present study investigated whether the transcriptional profiles of a putative CRM nutrient blend could mimic that of CR in diverse tissues following long-term feeding in B6C3F1 male mice. Study design: Young Controls (YC; 5 mo.) and 3 groups treated from 14-30 mo.: Old Controls (OC), Old CR (OCR; 25% CR) and Old Supplemented (OS); n=7/group. Gene expression profiling in cerebral cortex (CCT), skeletal muscle (gastrocnemius)(SKL), heart (HRT), white adipose tissue (WAT) and liver…

Sox17 regulates liver lipid metabolism and adaptation to fasting.

2014

Liver is a major regulator of lipid metabolism and adaptation to fasting, a process involving PPARalpha activation. We recently showed that the Vnn1 gene is a PPARalpha target gene in liver and that release of the Vanin-1 pantetheinase in serum is a biomarker of PPARalpha activation. Here we set up a screen to identify new regulators of adaptation to fasting using the serum Vanin-1 as a marker of PPARalpha activation. Mutagenized mice were screened for low serum Vanin-1 expression. Functional interactions with PPARalpha were investigated by combining transcriptomic, biochemical and metabolic approaches. We characterized a new mutant mouse in which hepatic and serum expression of Vanin-1 is …

Plasma Testosterone Levels and Atherosclerotic Plaque Gene Expression in Men With Advanced Atherosclerosis

2021

Aims: Low plasma testosterone levels have been shown to predict worse outcome in men with severe atherosclerotic disease. We hypothesized that a low plasma testosterone level affects disease risk through changes in gene expression in atherosclerotic plaques. Therefore, we studied plasma testosterone levels in relation to gene expression levels in atherosclerotic plaque tissue of men with advanced atherosclerotic disease.Methods: Plasma testosterone levels were measured in 203 men undergoing carotid endarterectomy. The corresponding atherosclerotic plaque tissue was used for RNA sequencing. First, we assessed how often the androgen receptor gene was expressed in the plaque. Second, correlati…

The genomics of the human endometrium

2012

AbstractThe endometrium is a complex tissue that lines the inside of the endometrial cavity. The gene expression of the different endometrial cell types is regulated by ovarian steroids and paracrine-secreted molecules from neighbouring cells. Due to this regulation, the endometrium goes through cyclic modifications which can be divided simply into the proliferative phase, the secretory phase and the menstrual phase. Successful embryo implantation depends on three factors: embryo quality, the endometrium's state of receptivity, and a synchronised dialogue between the maternal tissue and the blastocyst. There is a need to characterise the endometrium's state of receptivity in order to preven…

FUNCTIONAL GENOMIC APPROACHES TO ELUCIDATE BIOTIC AND ABIOTIC STRESS RESPONSES IN PLANTS

Underwater archaeological mosaicing

2006

Archaeological mosaicing is one of the challenges of the computer vision community and it can be faced in a 2D or 3D approach. This contribution regards a methodology to do a mosaic of an underwater bi-dimensional scene. A number of problems arise from the acquisition of images by a remote operated vehicle. Radial distortion, poor luminosity, cloud water, presence of artefacts are part of the issues that can occur; for instance, the radial distortion has been corrected to improve the quality of the input images. Keypoints detection (through SIFT transform), Singular Value Decomposition, Random Samples Consensus are some of the techniques applied in our method. This contribution regards the …