Search results for "DUP"
showing 10 items of 499 documents
Transformation of follicular lymphoma to diffuse large cell lymphoma is associated with a heterogeneous set of DNA copy number and gene expression al…
2002
AbstractGenomic aberrations in a series of paired biopsy samples from patients who presented initially with follicle center lymphoma (FCL) and subsequently transformed to diffuse large B-cell lymphoma (DLBCL) were measured by array comparative genomic hybridization (CGH). The consequences of these aberrations on gene expression were determined by comparison with expression analysis on these specimens using cDNA microarrays. A heterogeneous pattern of acquired genomic abnormalities was observed upon transformation, some of which were recurrent in small subsets of patients. Some of the genomic aberration acquired upon transformation, such as gain/amplification of 1q21-q24, 2p16 (REL/BCL11A ge…
Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana.
2000
Arabidopsis thaliana is an important model system for plant biologists. In 1996 an international collaboration (the Arabidopsis Genome Initiative) was formed to sequence the whole genome of Arabidopsis and in 1999 the sequence of the first two chromosomes was reported. The sequence of the last three chromosomes and an analysis of the whole genome are reported in this issue. Here we present the sequence of chromosome 3, organized into four sequence segments (contigs). The two largest (13.5 and 9.2 Mb) correspond to the top (long) and the bottom (short) arms of chromosome 3, and the two small contigs are located in the genetically defined centromere. This chromosome encodes 5,220 of the rough…
UVPAR: fast detection of functional shifts in duplicate genes.
2006
Abstract Background The imprint of natural selection on gene sequences is often difficult to detect. A plethora of methods have been devised to detect genetic changes due to selective processes. However, many of those methods depend heavily on underlying assumptions regarding the mode of change of DNA sequences and often require sophisticated mathematical treatments that made them computationally slow. The development of fast and effective methods to detect modifications in the selective constraints of genes is therefore of great interest. Results We describe UVPAR, a program designed to quickly test for changes in the functional constraints of duplicate genes. Starting with alignments of t…
Streamlining distributed Deep Learning I/O with ad hoc file systems
2021
With evolving techniques to parallelize Deep Learning (DL) and the growing amount of training data and model complexity, High-Performance Computing (HPC) has become increasingly important for machine learning engineers. Although many compute clusters already use learning accelerators or GPUs, HPC storage systems are not suitable for the I/O requirements of DL workflows. Therefore, users typically copy the whole training data to the worker nodes or distribute partitions. Because DL depends on randomized input data, prior work stated that partitioning impacts DL accuracy. Their solutions focused mainly on training I/O performance on a high-speed network but did not cover the data stage-in pro…
HeterozygousFGF8mutations in patients presenting cryptorchidism and multiple VATER/VACTERL features without limb anomalies
2014
Background The acronym VATER/VACTERL association describes the combination of at least three of the following cardinal features: vertebral defects, anorectal malformations, cardiac defects, tracheoesophageal fistula with or without esophageal atresia, renal malformations, and limb defects. Although fibroblast growth factor-8 (FGF8) mutations have mainly found in patients with Kallmann syndrome, mice with a hypomorphic Fgf8 allele or complete gene invalidation display, aside from gonadotropin-releasing hormone deficiency, parts or even the entire spectrum of human VATER/VACTERL association. Methods We performed FGF8 gene analysis in 49 patients with VATER/VACTERL association and 27 patients …
Exceptional Quantum Walk Search on the Cycle
2016
Quantum walks are standard tools for searching graphs for marked vertices, and they often yield quadratic speedups over a classical random walk's hitting time. In some exceptional cases, however, the system only evolves by sign flips, staying in a uniform probability distribution for all time. We prove that the one-dimensional periodic lattice or cycle with any arrangement of marked vertices is such an exceptional configuration. Using this discovery, we construct a search problem where the quantum walk's random sampling yields an arbitrary speedup in query complexity over the classical random walk's hitting time. In this context, however, the mixing time to prepare the initial uniform state…
Randomized renaming in shared memory systems.
2021
Abstract Renaming is a task in distributed computing where n processes are assigned new names from a name space of size m . The problem is called tight if m = n , and loose if m > n . In recent years renaming came to the fore again and new algorithms were developed. For tight renaming in asynchronous shared memory systems, Alistarh et al. describe a construction based on the AKS network that assigns all names within O ( log n ) steps per process. They also show that, depending on the size of the name space, loose renaming can be done considerably faster. For m = ( 1 + ϵ ) ⋅ n and constant ϵ , they achieve a step complexity of O ( log log n ) . In this paper we consider tight as well as loos…
Minimal nontrivial space complexity of probabilistic one- way turing machines
2005
Languages recognizable in o(log log n) space by probabilistic one — way Turing machines are proved to be regular. This solves an open problem in [4].
Editor's Choice – Follow-up of Patients After Revascularisation for Peripheral Arterial Diseases: A Consensus Document From the European Society of C…
2019
International audience; Peripheral arterial diseases comprise different clinical presentations, from cerebrovascular disease down to lower extremity artery disease, from subclinical to disabling symptoms and events. According to clinical presentation, the patient's general condition, anatomical location and extension of lesions, revascularisation may be needed in addition to best medical treatment. The 2017 European Society of Cardiology guidelines in collaboration with the European Society for Vascular Surgery have addressed the indications for revascularisation. While most cases are amenable to either endovascular or surgical revascularisation, maintaining long-term patency is often chall…