Search results for "Array"
showing 10 items of 1264 documents
Plaid model for microarray data: an enhancement of the pruning step
2010
Microarrays have become a standard tool for studying gene functions. For example, we can investigate if a subset of genes shows a coherent expression pattern under different conditions. The plaid model, a model-based biclustering method, can be used to incorporate the addiction structure used for the microarray experiment. In this paper we describe an enhancement for the plaid model algorithm based on the theory of the false discovery rate.
Microarray mRNA expression analysis of Fanconi anemia fibroblasts.
2007
Fanconi anemia (FA) cells are generally hypersensitive to DNA cross-linking agents, implying that mutations in the different <i>FANC</i> genes cause a similar DNA repair defect(s). By using a customized cDNA microarray chip for DNA repair- and cell cycle-associated genes, we identified three genes, cathepsin B (<i>CTSB</i>), glutaredoxin (<i>GLRX</i>), and polo-like kinase 2 (<i>PLK2</i>), that were misregulated in untreated primary fibroblasts from three unrelated FA-D2 patients, compared to six controls. Quantitative real-time RT PCR was used to validate these results and to study possible molecular links between FA-D2 and other FA subtypes.…
Comparison of spike parameters from optically identified GABAergic and glutamatergic neurons in sparse cortical cultures
2015
We are pleased to note that our publication “Comparison of spike parameters from optically identified GABAergic and glutamatergic neurons in sparse cortical cultures” by Weir et al. (2015) raised some discussion on the feasibility of solely electrophysiological discrimination of distinct neuronal subpopulations in vitro. We agree with Becchetti and Wanke (2015) that their report and our study on the same question were conducted with different technical approaches and that this may explain the observed differences between both studies. Although we obviously recorded a reduced spontaneous neuronal activity under our sparse culture conditions, these conditions were necessary to enable the uneq…
Use of functional genes to quantify denitrifiers in the environment.
2006
During the last decade, application of molecular methods using cultivation-independent approaches has provided new insights into the composition and structure of denitrifying communities in various environments. However, little is known about their abundance, and quantification is still performed using cultivation-based approaches, which are not only biased by the inability to cultivate of many micro-organisms but also fastidious and time-consuming. Two types of cultivation-independent approaches have recently been developed to quantify denitrifiers. The first type, which is based on the hybridization technique, comprises the use of Southern hybridization and DNA arrays. The second type, ba…
Implementing a Margolus Neighborhood Cellular Automata on a FPGA
2003
Margolus neighborhood is the easiest form of designing Cellular Automata Rules with features such as invertibility or particle conserving. In this paper we introduce a notation to describe completely a rule based on this neighborhood and implement it in two ways: The first corresponds to a classical RAM-based implementation, while the second, based on concurrent cells, is useful for smaller systems in which time is a critical parameter. This implementation has the feature that the evolution of all the cells in the design is performed in the same clock cycle.
A multi-layer method to study genome-scale positions of nucleosomes
2009
AbstractThe basic unit of eukaryotic chromatin is the nucleosome, consisting of about 150 bp of DNA wrapped around a protein core made of histone proteins. Nucleosomes position is modulated in vivo to regulate fundamental nuclear processes. To measure nucleosome positions on a genomic scale both theoretical and experimental approaches have been recently reported. We have developed a new method, Multi-Layer Model (MLM), for the analysis of nucleosome position data obtained with microarray-based approach. The MLM is a feature extraction method in which the input data is processed by a classifier to distinguish between several kinds of patterns. We applied our method to simulated-synthetic and…
Pathogenetic and diagnostic significance of microRNA deregulation in peripheral T-cell lymphoma not otherwise specified
2014
Peripheral T-cell lymphomas not otherwise specified (PTCLs/NOS) are rare and aggressive tumours whose molecular pathogenesis and diagnosis are still challenging. The microRNA (miRNA) profile of 23 PTCLs/NOS was generated and compared with that of normal T-lymphocytes (CD4+, CD8+, naive, activated). The differentially expressed miRNA signature was compared with the gene expression profile (GEP) of the same neoplasms. The obtained gene patterns were tested in an independent cohort of PTCLs/NOS. The miRNA profile of PTCLs/NOS then was compared with that of 10 angioimmunoblastic T-cell lymphomas (AITLs), 6 anaplastic large-cell lymphomas (ALCLs)/ALK+ and 6 ALCLs/ALK - . Differentially expressed…
Resource-efficient hardware implementation of a neural-based node for automatic fingerprint classification
2017
Modern mobile communication networks and Internet of Things are paving the way to ubiquitous and mobile computing. On the other hand, several new computing paradigms, such as edge computing, demand for high computational capabilities on specific network nodes. Ubiquitous environments require a large number of distributed user identification nodes enabling a secure platform for resources, services and information management. Biometric systems represent a useful option to the typical identification systems. An accurate automatic fingerprint classification module provides a valuable indexing scheme that allows for effective matching in large fingerprint databases. In this work, an efficient em…
Improvement of Fingerprint Sensor Reading Using FPGA Devices
2008
In order to realize fingerprint recognition system in real time environment, we describe in this paper signal controller to read fingerprint sensor generated in FPGA devices. Basically this signal is generated using state machine. The simulation result for behavioral simulation and signal generation read by logic analyzer are presented in this paper. Initialization and reading time for 76800 pixels are 50.99 mS. It is faster than fingerprint sensor using USB connection, which is more than 250 ms.
Enabling ubiquitous wireless sensor networks: A new fault tolerant RF architecture with perpetual electrical power based on 802.15.4 and RFID
2007
The wireless communications field is in continuous growth and revolution. The current trend toward the use of distributed wireless systems is due to these systems have demonstrated to be a good option due to its flexibility and power. In this line, nowadays there is an enormous demand of wireless connectivity for any industrial control applications, included critical systems. In this paper, we want to discuss possibilities and necessary developments to set up wireless communication for industrial applications in general and critical systems in particular. Furthermore, an abstract definition of a layered architecture for the development of intelligent and distributed control systems based on…