University of Milano-Bicocca Showcase

Included in this folder are the original labels of the pictures, as well as the organized tables used for the statistics with additional information for each image, such as the coordinates or depth.

We propose a Bayesian Reduction for Amplified Quantization in Umap Embedding (BRAQUE) as an integrative novel approach, from data preprocessing to phenotype classification. BRAQUE starts with an innovative preprocessing, named Lognormal Shrinkage, able to enhance input fragmentation by fitting a lognormal mixture model and shrinking each component towards its median, in order to help further clustering step in finding more separated and clear clusters. The BRAQUE’s pipeline consist of a dimensionality reduction step performed using UMAP, and a clustering performed using HDBSCAN on UMAP embedding. These SUPPLEMENTAL DATA contain the csv image data files for seven lymphoid tissues, the antibody list and an MTA agreement letter for the CyBorgh software.

Codes and database originated for the manuscript published in the DOI article: 10.1016/j.jdeveco.2023.103053

These are supplemental data to the manuscript entitled: A DNA damage response-like phenotype defines a novel subset of colon cancer. A third of de-novo presentations of colorectal cancer display foci of positivity for ℽH2AX, pCHK2, pNBS1 in the absence of apoptosis or senescence associated p21/CDKN1A. This phenotype is reminiscent of an ongoing DNA damage response (DDR). The TP53 status, the chromosome 20q amplification or the microsatellite instability gene status did not correlate with the DDR phenotype, except for a preferential association with MSH2/MSH6 inactivation and conserved MLH1. Additional lesions of DDR-associated genes may be responsible for this phenotype, which is absent from the remaining cases in this cohort. The outcome, after adjuvant treatment with DNA-damaging drugs, did not differentiate this group from the remaining cases. DDR+ colorectal cancers may be amenable to personalized therapy by targeting the DDR.

Original (Italian) and English translation of the questionnaires used to perform the study. Original dataset used to perform the analysis (in Italian)

Tubulointerstitial fibrosis is observed in diabetic nephropathy. It is still debated whether tubular cells, undergoing epithelial-mesenchymal transition (EMT) in high glucose (HG) conditions, may contribute to interstitial fibrosis development. In this study, we investigated the phenotypic and molecular EMT-like changes and the alteration of inflammatory and fibrogenic secretome induced by HG in human primary tubular cell cultures. Taking advantage of this in vitro cell model composed of proximal and distal tubular cells, we showed that HG-treated tubular cells acquired a fibroblast-like morphology with cytoplasmic stress fibers, maintaining the expression of the epithelial markers specific of proximal and distal tubular cells. HG increased Snail1, miRNA210 and Vimentin mesenchymal markers, decreased N-cadherin expression and migration ability of primary tubular cells, while E-cadherin expression and focal adhesion distribution were not affected. Furthermore, HG treatment of tubular cells altered the inflammatory cytokine secretion creating a secretome able to enhance the proliferation and migration of fibroblasts. Our findings show that HG promotes an activated state of partial EMT in human tubular primary cells and induces a pro-inflammatory and pro-fibrogenic microenvironment, supporting the active role of tubular cells in diabetic nephropathy onset.

Metabolite library built from NMR spectra for metabolomic analysis of cheese whey permeate (CWP) using the Simple Mixture Analysis (SMA) tool implemented in MestreNova 14.3 software. Metabolites included: 2,3-Butandiol, Acetate, Alanine, Betaine, Choline, Citrate, Creatine, Creatinine, Ethanol, Fumarate, Hippurate, Lactate, Lactose, Orotate, Succinate, α-D-Galactose, β-D-Galactose Sample CWP in PB 10 mM (10% D2O) pH 7.4, TSP (1mM), Diluition Factor (10%) File included: SMA library .exp files and optimized .cmp files

In an online study we investigated in White Italian adults whether individuals with high autistic traits (measured by the Autism spectrum Quotient) show reduced implicit racial bias (measured by the Implicit Association Test) and if this bias would lead to differences in the gaze cueing effect (GCE) triggered by gaze direction of faces of different races. Results showed that participants with high and low-medium autistic traits had the same ingroup bias. Interestingly, females with high autistic traits showed a significant GCE only for White faces. However, with Black cueing faces when the AQ score increased the GCE decreased or was absent. In females, higher level of autistic traits is associated with a reduced ability to orient attention toward the outgroup.

Face evaluation and first impression generation can be affected by multiple face elements such as invariant facial features, gaze direction and environmental context; however, the composite modulation of eye gaze and illumination on faces of different gender and ages has not been previously investigated. We aimed at testing how these different facial and contextual features affect ratings of social attributes. Thus, we created and validated the Bi-AGI Database, a freely available new set of male and female face stimuli varying in age across lifespan from 18 to 87 years, gaze direction and illumination conditions. Judgments on attractiveness, femininity-masculinity, dominance and trustworthiness were collected for each stimulus. Results evidence the interaction of the different variables in modulating social trait attribution, in particular illumination differently affects ratings across age, gaze and gender, with less impact on older adults and greater effect on young faces.

Municipal waste management cost