Numerical simulation of 2D steady granular flows in rotating drum: On surface flows rheology

13 pages, 14 figures, 61 references, submitted to Phys. FluidsThe rheology of 2D steady surface flow of cohesionless cylinders in a rotating drum is investigated through {\em Non Smooth Contact Dynamics} simulations. Profile of volume fraction, translational and angular velocity, rms velocity, strain rate and stress tensor were measured at the midpoint along the length of the surface flowing layer where the flow is generally considered as steady and homogeneous. Analysis of these data and their inter-relations suggest the local inertial number - defined as the ratio between local inertial forces and local confinement forces - to be the relevant dimensionless parameter to describe the transition from the quasi-static part of the packing to the flowing part at the surface of the heap. Variations of the components of the stress tensor as well as the ones of rms velocity as a function of the inertial number are analysed within both the quasi-static and the flowing phases. Their implications are discussed

Gene expression profiling of tumour epithelial and stromal compartments during breast cancer progression

The progression of ductal carcinoma in situ (DCIS) to invasive ductal carcinoma (IDC) marks a critical step in the evolution of breast cancer. There is some evidence to suggest that dynamic interactions between the neoplastic cells and the tumour microenvironment play an important role. Using the whole-genome cDNA-mediated annealing, selection, extension and ligation assay (WG-DASL, Illumina), we performed gene expression profiling on 87 formalin-fixed paraffin-embedded (FFPE) samples from 17 patients consisting of matched IDC, DCIS and three types of stroma: IDC-S ( 10 mm from IDC or DCIS). Differential gene expression analysis was validated by quantitative real time-PCR, immunohistochemistry and immunofluorescence. The expression of several genes was down-regulated in stroma from cancer patients relative to normal stroma from reduction mammoplasties. In contrast, neoplastic epithelium underwent more gene expression changes during progression, including down regulation of SFRP1. In particular, we observed that molecules related to extracellular matrix (ECM) remodelling (e.g. COL11A1, COL5A2 and MMP13) were differentially expressed between DCIS and IDC. COL11A1 was overexpressed in IDC relative to DCIS and was expressed by both the epithelial and stromal compartments but was enriched in invading neoplastic epithelial cells. The contributions of both the epithelial and stromal compartments to the clinically important scenario of progression from DCIS to IDC. Gene expression profiles, we identified differential expression of genes related to ECM remodelling, and specifically the elevated expression of genes such as COL11A1, COL5A2 and MMP13 in epithelial cells of IDC. We propose that these expression changes could be involved in facilitating the transition from in situ disease to invasive cancer and may thus mark a critical point in disease development

Quantitative titration of nucleic acids by enzymatic amplification reactions run to saturation.

In vitro enzymatic amplification of nucleic acids by PCR or other techniques is a very sensitive method to detect rare DNA segments. We present here a protocol that allows the rapid, sensitive and precise quantification of DNA molecules using PCR amplification run to saturation. The DNA (or cDNA) to be assayed is co-amplified with known amounts of an internal standard DNA. We show that the latter must be almost identical to the assayed DNA, otherwise quantification at the plateau is unreliable. The read-out of the amplification involves one or two additional oligonucleotides. Using fluorescent oligonucleotides as primers in run-off reactions together with an automated DNA sequencer, we could measure the level of expression of several genes, like the murine MHC class I H-2Kd or a specific T cell receptor beta chain transcript in the course of an immunization. mRNA levels were normalized by measuring in a similar manner the number of transcripts encoding the housekeeping gene HPRT. Finally, our procedure might allow the rapid analysis of a large number of samples at the same time, as illustrated by the simultaneous analysis of the mRNAs encoding the CD4 and CD8 murine T cell markers

Validation of in-vitro strain measurement by Magnetic Resonance Imaging of realistic abdominal aortic aneurism phantom

International audiencePreoperative diagnostic protocols of abdominal aortic aneurysm (AAA) are today mainlybased on the measurement of the aortic maximum diameter. This measurement is insufficient becausethe diameter is not a discriminant variable for predicting the rupture of the aorta. Recent works showthe importance of determining the wall stress both due to the aortic shape, the pressure and the bloodflow. The problem is very complex and requires the implementation of sophisticated models takinginto account the heterogeneity of tissues and the complexity of flow. Then it is essential to validatethe capacity of existing medical imaging systems to provide reliable measurements that will beintroduced in these models