Involvement of eicosanoid signalling in epithelial cell migration

The development of inflammatory bowel diseases (IBD) and colon cancer (CC) has been shown to involve the up-regulation of inflammatory mediators and the machinery producing them such as the eicosanoids. Changes in the expression of extracellular matrix proteins and their related integrin receptors have also been shown to be important in the advancement IBD and CC. In light of this, we have investigated the role of eicosanoids in cell migration a key process in IBD and CC. This was through direct stimulation, with the eicosanoid leukotriene D4 (LTD4) or indirectly through inducing cyclooxygenase-2 (COX-2; an enzyme involved in the production of various eicosanoids) expression, by activating integrin collagen receptors. We observed that direct stimulation with LT D4, induced intestinal epithelial cell migration, through activation of the CysLT1 receptor, phosphotidylinositol-3 kinase, Vav2 and Rac localisation to membrane ruffles. Indirect stimulation, by activating COX-2 expression in a _2_1 integrin dependent manner was able to elicit a migratory response. The integrin dependent COX-2 expression was shown to be mediated through the activation of CD47 and its associated G_i3 protein, which in turn lead to protein kinase C_, the Ras GTPase and NF_B activation. COX-2 expression is synonymous with activation of the protein. Inhibition of COX-2 expression or specifically inhibiting COX-2 activity, resulted in cell adhesion being favoured over cell migration in a CD47 dependent manner. Thus understanding cellular mechanisms leading to cell migration may reveal novel targets and lead to new therapeutic strategies in treating IBD and CC

You Can't Get There from Here

You Can’t Get There from Here was commissioned by the Sound Festival 2015 with funding from Creative Scotland. The idea, emerging initially from New Music Scotland’s 2014 ‘Time Out’ composer residency, was to experiment with a method of collaborating on music that was fully integrated but at the same time allowed for some emergence of individual voice. This resulted in a process whereby the six composers in the group each started a fragment of music, and each passed that fragment on to another member of the group, according to a predetermined schedule. Each composer then altered, added to, or took away from, the material that they were given, and then passed it to the next. This process continued until the transformed fragment arrived back at the composer it started with. The performance of the final six-part collaboration occurred on October 22, 2015 at the Sound Festival in Aberdeen, Scotland. BBC Radio Scotland broadcast a feature on "Classics Unwrapped" with Jamie MacDougall in early November 2015

A spatial judgement task to determine background emotional state in laboratory rats (Rattus norvegicus)

Humans experiencing different background emotional states display contrasting cognitive (e.g. judgement) biases when responding to ambiguous stimuli. We have proposed that such biases may be used as indicators of animal emotional state. Here, we use a spatial judgement task, in which animals are trained to expect food in one location and not another, to determine whether rats in relatively positive or negative emotional states respond differently to ambiguous stimuli of intermediate spatial location. We housed 24 rats with environmental enrichment for seven weeks. Enrichment was removed for half the animals prior to the start of training (‘U’: unenriched) to induce a relatively negative emotional state, whilst being left in place for the remaining rats (‘E’: enriched). After six training days, the rats successfully discriminated between the rewarded and unrewarded locations in terms of an increased latency to arrive at the unrewarded location, with no housing treatment difference. The subjects then received three days of testing in which three ambiguous ‘probe’ locations, intermediate between the rewarded and unrewarded locations, were introduced. There was no difference between the treatments in the rats’ judgement of two out of the three probe locations, the exception being when the ambiguous probe was positioned closest to the unrewarded location. This result suggests that rats housed without enrichment, and in an assumed relatively negative emotional state, respond differently to an ambiguous stimulus compared to rats housed with enrichment, providing evidence that cognitive biases may be used to assess animal emotional state in a spatial judgement task

Evidence for Impaired CARD15 Signalling in Crohn's Disease without Disease Linked Variants

BACKGROUND:Sensing of muramyl dipeptide (MDP) is impaired in Crohn's disease (CD) patients with disease-linked variants of the CARD15 (caspase activation and recruitment domain 15) gene. Animal studies suggest that normal CARD15 signalling prevents inflammatory bowel disease, and may be important for disease development in CD. However, only a small fraction of CD patients carry the disease linked CARD15 variants. The aim of this study was thus to investigate if changes could be found in CARD15 signalling in patients without disease associated CARD15 variants. METHODOLOGY/PRINCIPAL FINDINGS:By mapping the response to MDP in peripheral monocytes obtained from CD patients in remission not receiving immunosuppresives, an impaired response to MDP was found in patients without disease linked CARD15 variants compared to control monocytes. This impairment was accompanied by a decreased activation of IkappaB kinase alpha/beta (IKKalpha/beta), the initial step in the nuclear factor kappaB (NFkappaB) pathway, whereas activation of mitogen-activated protein (MAP)-kinases was unaffected. MDP additionally stimulates the inflammasome which is of importance for processing of cytokines. The inflammasome was constitutively activated in CD, but unresponsive to MDP both in CD and control monocytes. CONCLUSIONS/SIGNIFICANCE:These results suggest that inhibited MDP-dependent pathways in CD patients not carrying the disease-associated CARD15 variants might be of importance for the pathogenesis of CD. The results reveal a dysfunctional immune response in CD patients, not able to sense relevant stimuli on the one hand, and on the other hand possessing constitutively active cytokine processing

Pan-Cancer Analysis of lncRNA Regulation Supports Their Targeting of Cancer Genes in Each Tumor Context

Long noncoding RNAs (lncRNAs) are commonly dys-regulated in tumors, but only a handful are known toplay pathophysiological roles in cancer. We inferredlncRNAs that dysregulate cancer pathways, onco-genes, and tumor suppressors (cancer genes) bymodeling their effects on the activity of transcriptionfactors, RNA-binding proteins, and microRNAs in5,185 TCGA tumors and 1,019 ENCODE assays.Our predictions included hundreds of candidateonco- and tumor-suppressor lncRNAs (cancerlncRNAs) whose somatic alterations account for thedysregulation of dozens of cancer genes and path-ways in each of 14 tumor contexts. To demonstrateproof of concept, we showed that perturbations tar-geting OIP5-AS1 (an inferred tumor suppressor) andTUG1 and WT1-AS (inferred onco-lncRNAs) dysre-gulated cancer genes and altered proliferation ofbreast and gynecologic cancer cells. Our analysis in-dicates that, although most lncRNAs are dysregu-lated in a tumor-specific manner, some, includingOIP5-AS1, TUG1, NEAT1, MEG3, and TSIX, synergis-tically dysregulate cancer pathways in multiple tumorcontexts

Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas

Although theMYConcogene has been implicated incancer, a systematic assessment of alterations ofMYC, related transcription factors, and co-regulatoryproteins, forming the proximal MYC network (PMN),across human cancers is lacking. Using computa-tional approaches, we define genomic and proteo-mic features associated with MYC and the PMNacross the 33 cancers of The Cancer Genome Atlas.Pan-cancer, 28% of all samples had at least one ofthe MYC paralogs amplified. In contrast, the MYCantagonists MGA and MNT were the most frequentlymutated or deleted members, proposing a roleas tumor suppressors.MYCalterations were mutu-ally exclusive withPIK3CA,PTEN,APC,orBRAFalterations, suggesting that MYC is a distinct onco-genic driver. Expression analysis revealed MYC-associated pathways in tumor subtypes, such asimmune response and growth factor signaling; chro-matin, translation, and DNA replication/repair wereconserved pan-cancer. This analysis reveals insightsinto MYC biology and is a reference for biomarkersand therapeutics for cancers with alterations ofMYC or the PMN

Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas

This integrated, multiplatform PanCancer Atlas study co-mapped and identified distinguishing molecular features of squamous cell carcinomas (SCCs) from five sites associated with smokin

Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images

Beyond sample curation and basic pathologic characterization, the digitized H&E-stained images of TCGA samples remain underutilized. To highlight this resource, we present mappings of tumorinfiltrating lymphocytes (TILs) based on H&E images from 13 TCGA tumor types. These TIL maps are derived through computational staining using a convolutional neural network trained to classify patches of images. Affinity propagation revealed local spatial structure in TIL patterns and correlation with overall survival. TIL map structural patterns were grouped using standard histopathological parameters. These patterns are enriched in particular T cell subpopulations derived from molecular measures. TIL densities and spatial structure were differentially enriched among tumor types, immune subtypes, and tumor molecular subtypes, implying that spatial infiltrate state could reflect particular tumor cell aberration states. Obtaining spatial lymphocytic patterns linked to the rich genomic characterization of TCGA samples demonstrates one use for the TCGA image archives with insights into the tumor-immune microenvironment

Hens vary their vocal repertoire and structure when anticipating different types of reward

The vocalizations of nonhuman animals are considered potential indicators of motivational or internal state. In many species, different call types, and structural variation within call types, encode information about physical characteristics such as age or sex, or about variable traits such as motivation. Domestic chickens, Gallus gallus, have an elaborate vocal repertoire, enabling investigation into whether reward-related arousal is encoded within their call type and structure. Twelve hens were given a Pavlovian conditioning paradigm using sound cues to signal the availability of two food rewards (mealworms, normal food), one nonfood reward (a container of substrate suitable for dustbathing), and a sound-neutral event (sound cue, no reward). A muted-neutral treatment (no sound cue, no reward) provided a baseline for vocal behaviour. Sound cues preceded a 15 s anticipation period during which vocalizations were recorded. Hens produced a ‘Food call’ (previously defined in other studies) in anticipation of all rewards, including the nonfood reward. ‘Food calls’ and ‘Fast clucks’ were more prevalent in anticipation of rewards, and most prevalent following the cue signalling the dustbathing substrate, suggesting that this reward induced the most arousal in hens. The peak frequency of ‘Food calls’ made in anticipation of the dustbathing substrate was significantly lower than those made in anticipation of food rewards, potentially reflecting differences in arousal. Vocalizations that reliably indicate hens' motivational state could be used as measures of welfare in on-farm assessment situations. Our study is the first to reveal variation in the frequency-related parameters of the ‘Food call’ in different contexts, and to show the prevalence of different call types in reward and nonreward contexts, which may have implications for welfare assessments