Data-driven approach for synchrotron X-ray Laue microdiffraction scan analysis

We propose a novel data-driven approach for analyzing synchrotron Laue X-ray microdiffraction scans based on machine learning algorithms. The basic architecture and major components of the method are formulated mathematically. We demonstrate it through typical examples including polycrystalline BaTiO$_3$, multiphase transforming alloys and finely twinned martensite. The computational pipeline is implemented for beamline 12.3.2 at the Advanced Light Source, Lawrence Berkeley National Lab. The conventional analytical pathway for X-ray diffraction scans is based on a slow pattern by pattern crystal indexing process. This work provides a new way for analyzing X-ray diffraction 2D patterns, independent of the indexing process, and motivates further studies of X-ray diffraction patterns from the machine learning prospective for the development of suitable feature extraction, clustering and labeling algorithms.Comment: 29 pages, 25 figures under the second round of review by Acta Crystallographica

Gender-specific association of decreased estimated glomerular filtration rate and left vertical geometry in the general population from rural Northeast China

Abstract Background Left ventricular hypertrophy (LVH) is common and associated with cardiovascular outcomes among patients with known chronic kidney disease (CKD). However, the link between decreased estimated glomerular filtration rate (eGFR) and left ventricular (LV) geometry remains poorly explored in general population. In this study, we examined the gender-specific association between eGFR and LVH in the general population from rural Northeast China. Methods This survey was conducted from July 2012 to August 2013. A total of 10907 participants (5,013 men and 5,894 women) from the rural Northeast China were randomly selected and examined. LV mass index (LVMI) was used to define LVH (LVMI\u2009>\u200946.7\ua0g/m 2.7 in women; > 49.2\ua0g/m 2.7 in men). LV geometry was defined as normal, or with concentric remodeling, eccentric or concentric hypertrophy, according to relative wall thickness (RWT) and LVMI. Mildly decreased eGFR was defined as eGFR\u2009\u2265\u200960 and\u2009<\u200990\ua0ml/min/1.73\ua0m 2 , and moderate-severely decreased eGFR was defined as eGFR\u2009<\u200960\ua0ml/min/1.73\ua0m 2 . Results As eGFR decreased, LVH showed a gradual increase in the entire study population. Multivariate analysis revealed a gender-specific relationship between eGFR and LV geometry. Only in men, mildly decreased eGFR was associated with concentric remodeling [odds ratio (OR): =1.58; 95% CI: 1.14\u20132.20; P \u2009<\u20090.01] and concentric LVH OR \u2009=\u20091.63; 95% CI: 1.15\u20132.31; P \u2009<\u20090.01). And only in men, moderate-severely decreased eGFR was a risk factor for concentric LVH ( OR \u2009=\u20094.56; 95% CI: 2.14\u20139.73; P \u2009<\u20090.001) after adjusting for confounding factors. Conclusions These findings suggested that decreased eGFR was a risk factor for LV geometry in men, and a gender-specific difference should be taken into account in clinical practice

Association of CYP1B1 Polymorphisms with Breast Cancer: A Case-Control Study in the Han Population in Ningxia Hui Autonomous Region, P. R. China

Studies investigating possible associations between cytochrome P4501B1 (CYP1B1) polymorphisms and breast cancer risk have been inconsistent. We set out to ascertain whether there might be an association between polymorphisms in exon 2 (codon 119, G→T) and exon 3 (codon 432, G→C) of CYP1B1 and breast cancer in a Chinese Han population in the rural region of Ningxia. Using an allele-specific polymerase chain reaction method and direct DNA sequencing, the presence or absence of the two CYP1B1 polymorphisms was investigated. Genotype and allele frequencies were analyzed in breast cancer cases (n = 152) and healthy age-matched controls (n = 156). The odds ratio (OR) of 119G→T or 432G→C in breast cancer cases and controls was 3.3 (95% CI: 1.28 to 8.28) and 2.8 (95% CI: 1.04 to 7.51), respectively. In addition, the OR for people with both polymorphisms (119T and 432C) was 4.69 (95% CI: 1.97 to 11.19). Our results suggest that certain polymorphisms in the CYP1B1 gene might increase risk for breast cancer among Han Chinese, perhaps because they influence the efficiency of CYP1B1 bio-transformation of oestrogens or pro-carcinogens into DNA-reactive electrophiles that may act as cancer-initiating agents

Determination of the stretch tensor for structural transformations

The transformation stretch tensor plays an essential role in the evaluation of conditions of compatibility between phases and the use of the Cauchy-Born rule. This tensor is difficult to measure directly from experiment. We give an algorithm for the determination of the transformation stretch tensor from x-ray measurements of structure and lattice parameters. When evaluated on some traditional and emerging phase transformations the algorithm gives unexpected results.Comment: 3 figures, 1 tabl

Segmentation and lateral growth of intracratonic strike-slip faults in the northern Tarim Basin, NW China: influences on Ordovician fault-controlled carbonate reservoirs

Intracratonic strike-slip faults have been recognized as a major factor controlling the formation of fracture-cave carbonate reservoirs in deep buried basins, yet which properties and how the strike-slip faults influence reservoir distribution and their connectivity are still ambiguous. This uncertainty significantly restricts hydrocarbon exploration and development, such as in the Fuman oilfield, northern Tarim Basin, NW China. Using a high-resolution 3D seismic reflection survey and borehole data, we investigated the geometry and kinematic evolution of the FI17 fault zone in the Fuman oilfield. This fault zone is characterized by a single fault zone, pop-up or pull-apart structures, right-stepping en echelon normal faults, and much smaller displacement (&lt;30 m) normal fault arrays from bottom to top. The FI17 fault zone consists of four genetic segments, including the extensional strike-slip duplex, Riedel left-lateral shear, right-stepping horsetail splay, and horizontal slip segments in map view. In particular, the formation of the ∼18 km Riedel shear zone is characterized by the growth and linkage of segmented shear faults (synthetic and secondary synthetic shears). We observed that the large-scale fault-controlled fracture-cave reservoirs are distributed in positions with wider fault zones, which are characterized by overlapping of neighboring secondary shear faults. Furthermore, the reservoir width examined in this study is natural logarithmic correlated (positively) to the fault zone width. The reservoirs linked by the same shear faults show better internal connectivity. The spatial coherence between fault geometry and reservoir features indicates that segmentation and lateral growth of intracratonic strike-slip faults controls the occurrence of fracture-cave reservoirs, which may provide support for reservoir prediction in the Fuman oilfield and other deeply buried fault-controlled carbonate reservoirs in general