Effect of Thickener Particle Geometry and Concentration on the Grease EHL Film Thickness at Medium Speeds

The aim of this paper was to understand the parameters influencing the grease film thickness in a rolling elastohydrodynamically lubricated contact under fully flooded conditions at medium speeds. Film thickness measurements were taken under pure rolling for six commercial greases and their bled oils. The grease film thickness was found to be higher than corresponding bled oil, suggesting the presence of thickener in the contact. No rheological properties (characterized by steady and dynamic shear) showed any direct relation to the film thickness of the studied greases. AFM measurements of the thickener microstructure, from which the dimensional properties of the thickener particles (fibers/platelets/spheres) were estimated, showed that the relative increase in the film thickness due to entrainment of the thickener was proportional to the ratio of thickener volume fraction to the size of the fibers/platelets/spheres. Hence, with the same concentration, smaller thickener particles lead to the generation of thicker films than larger thickener particles. Next, this relation was used to establish the percentage of the thickener particles passing through the contact. Depending on the grease type, between about 1 and 70 % of the thickener particles were found to travel through the contact

Infrared spectroscopy of HCOOH in interstellar ice analogues

Context: HCOOH is one of the more common species in interstellar ices with abundances of 1-5% with respect to solid H2O. Aims: This study aims at characterizing the HCOOH spectral features in astrophysically relevant ice mixtures in order to interpret astronomical data. Methods: The ices are grown under high vacuum conditions and spectra are recorded in transmission using a Fourier transform infrared spectrometer. Pure HCOOH ices deposited at 15 K and 145 K are studied, as well as binary and tertiary mixtures containing H2O, CO, CO2 and CH3OH. The mixture concentrations are varied from 50:50% to ~10:90% for HCOOH:H2O. Binary mixtures of HCOOH:X and tertiary mixtures of HCOOH:H2O:X with X = CO, CO2, and CH3OH, are studied for concentrations of ~10:90% and ~7:67:26%, respectively. Results: Pure HCOOH ice spectra show broad bands which split around 120 K due to the conversion of a dimer to a chain-structure. Broad single component bands are found for mixtures with H2O. Additional spectral components are present in mixtures with CO, CO2 and CH3OH. The resulting peak position, full width at half maximum and band strength depend strongly on ice structure, temperature, matrix constituents and the HCOOH concentration. Comparison of the solid HCOOH 5.9, 7.2, and 8.1 micron features with astronomical data toward the low mass source HH 46 and high mass source W 33A shows that spectra of binary mixtures do not reproduce the observed ice features. However, our tertiary mixtures especially with CH3OH match the astronomical data very well. Thus interstellar HCOOH is most likely present in tertiary or more complex mixtures with H2O, CH3OH and potentially also CO or CO2, providing constraints on its formation.Comment: 11 pages, 10 figures, accepted by A&

Integrated analysis of germline and somatic variants in ovarian cancer

We report the first large-scale exome-wide analysis of the combined germline-somatic landscape in ovarian cancer. Here we analyze germline and somatic alterations in 429 ovarian carcinoma cases and 557 controls. We identify 3,635 high confidence, rare truncation and 22,953 missense variants with predicted functional impact. We find germline truncation variants and large deletions across Fanconi pathway genes in 20% of cases. Enrichment of rare truncations is shown in BRCA1, BRCA2, and PALB2. Additionally, we observe germline truncation variants in genes not previously associated with ovarian cancer susceptibility (NF1, MAP3K4, CDKN2B, and MLL3). Evidence for loss of heterozygosity was found in 100% and 76% of cases with germline BRCA1 and BRCA2 truncations respectively. Germline-somatic interaction analysis combined with extensive bioinformatics annotation identifies 237 candidate functional germline truncation and missense variants, including 2 pathogenic BRCA1 and 1 TP53 deleterious variants. Finally, integrated analyses of germline and somatic variants identify significantly altered pathways, including the Fanconi, MAPK, and MLL pathways

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