Centro Internacional Franco Argentino Of Ciencias Of La Informacion Y Of Sistemas

Rosario del Tala, Argentina

Centro Internacional Franco Argentino Of Ciencias Of La Informacion Y Of Sistemas

Rosario del Tala, Argentina
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Ezpeleta J.,Centro Internacional Franco Argentino Of Ciencias Of La Informacion Y Of Sistemas | Ezpeleta J.,National University of Rosario | Krsticevic F.J.,Centro Internacional Franco Argentino Of Ciencias Of La Informacion Y Of Sistemas | Bulacio P.,Centro Internacional Franco Argentino Of Ciencias Of La Informacion Y Of Sistemas | And 3 more authors.
Bioinformatics | Year: 2017

Motivation: To attain acceptable sample misassignment rates, current approaches to multiplex single-molecule real-time sequencing require upstream quality improvement, which is obtained from multiple passes over the sequenced insert and significantly reduces the effective read length. In order to fully exploit the raw read length on multiplex applications, robust barcodes capable of dealing with the full single-pass error rates are needed. Results: We present a method for designing sequencing barcodes that can withstand a large number of insertion, deletion and substitution errors and are suitable for use in multiplex single-molecule real-time sequencing. The manuscript focuses on the design of barcodes for full-length single-pass reads, impaired by challenging error rates in the order of 11%. The proposed barcodes can multiplex hundreds or thousands of samples while achieving sample misassignment probabilities as low as 10-7 under the above conditions, and are designed to be compatible with chemical constraints imposed by the sequencing process. © The Author 2016.


Tendela L.P.,Institute Fisica Rosario | Galizzi G.E.,Institute Fisica Rosario | Federico A.,Instituto Nacional Of Tecnologia Industrial | Kaufmann G.H.,Institute Fisica Rosario | Kaufmann G.H.,Centro Internacional Franco Argentino Of Ciencias Of La Informacion Y Of Sistemas
Optics and Lasers in Engineering | Year: 2015

Recently, a phase evaluation method was proposed to measure nanometric displacements by means of digital speckle pattern interferometry when the phase change introduced by the deformation is in the range [0,π) rad. This method is based on the evaluation of a correlation coefficient between two speckle interferograms generated by both deformation states of the object. In this paper, we present a novel technique to measure non-monotonous displacements in temporal speckle pattern interferometry using a correlation method without a temporal carrier. In this approach, the sign ambiguity is resolved automatically due to the introduction of a function that determines the correct sign of the displacement between two consecutive speckle interferograms. The rms phase errors introduced by the proposed method are determined using computer-simulated speckle interferograms. An application of the phase retrieval method to process experimental data is also presented. © 2015 Elsevier Ltd. All rights reserved.


Bernini M.B.,Institute Fisica Rosario | Federico A.,Instituto Nacional Of Tecnologia Industrial | Kaufmann G.H.,Institute Fisica Rosario | Kaufmann G.H.,Centro Internacional Franco Argentino Of Ciencias Of La Informacion Y Of Sistemas
Applied Optics | Year: 2011

We propose a phase measurement technique to retrieve optical phase distributions coded in noisy temporal speckle pattern interferometry signals presenting regions of adjacent low-modulated pixels, which is based on the bidimensional empirical mode decomposition and the Hilbert transform. It is shown that this approach can effectively remove noise and minimize the influence of large sets of adjacent nonmodulated pixels located in the time series of speckle interferograms. The performance of the phase retrieval approach is analyzed using computer-simulated speckle interferograms modulated with a temporal carrier. The results are also compared with those given by a technique based on the one-dimensional empirical mode decomposition. The advantages and limitations of the proposed approach are finally discussed. © 2011 Optical Society of America.


Tendela L.P.,Institute Fisica Rosario | Galizzi G.E.,Institute Fisica Rosario | Federico A.,Instituto Nacional Of Tecnologia Industrial | Kaufmann G.H.,Institute Fisica Rosario | Kaufmann G.H.,Centro Internacional Franco Argentino Of Ciencias Of La Informacion Y Of Sistemas
Applied Optics | Year: 2011

This paper presents a method to measure nanometric displacement fields using digital speckle pattern interferometry, which can be applied when the generated correlation fringes show less than one complete fringe. The method is based on the evaluation of the correlation between the two speckle interferograms generated by both deformation states of the object. The performance of the proposed method is analyzed using computer-simulated speckle interferograms. A comparison with the performance given by a phaseshifting technique is also presented, and the advantages and limitations of the proposed method are discussed. Finally, the performance of the proposedmethod to process real data is illustrated. ©2011 Optical Society of America.


Tendela L.P.,Institute Fisica Rosario | Galizzi G.E.,Institute Fisica Rosario | Federico A.,Instituto Nacional Of Tecnologia Industrial | Kaufmann G.H.,Institute Fisica Rosario | Kaufmann G.H.,Centro Internacional Franco Argentino Of Ciencias Of La Informacion Y Of Sistemas
Optics and Lasers in Engineering | Year: 2012

A phase evaluation method was recently proposed to measure nanometric displacements by means of digital speckle pattern interferometry when the phase change introduced by the deformation is in the range [0,π)rad. To evaluate the phase change, however, it is necessary to record separately the intensities of the object and the reference beams corresponding to both the initial and the deformed interferograms. This paper presents a fast approach that overcomes this limitation. The rms phase errors introduced by the proposed method are determined using computer-simulated speckle interferograms and its performance is also compared with the results obtained with a phase-shifting technique. An application of the proposed phase retrieval method to process experimental data is finally illustrated. © 2011 Elsevier Ltd. All rights reserved.


Casali A.,National University of Rosario | Casali A.,Centro Internacional Franco Argentino Of Ciencias Of La Informacion Y Of Sistemas | Deco C.,National University of Rosario | Deco C.,University Catolica Argentina Sede Rosario | Beltramone S.,National University of Rosario
Revista Iberoamericana de Tecnologias del Aprendizaje | Year: 2016

This paper presents an assistant to populate institutional repositories. This tool can detect all educational digital objects in a text format that are already published on institutional Websites and can be uploaded to a repository. This recopilation is a tedious task and is usually performed manually. In this paper, we propose a system architecture for automating this task of collecting text documents within a restricted domain in order to detect plausible documents that can be loaded into a repository. In addition, its metadata, such as language, category, title, authors, and their contact data, is automatically extracted. A prototype of this system was developed, and case studies in two different domains are analyzed. © 2013 IEEE.


PubMed | National University of Rosario and Centro Internacional Franco Argentino Of Ciencias Of La Informacion Y Of Sistemas
Type: | Journal: Bioinformatics (Oxford, England) | Year: 2016

To attain acceptable sample misassignment rates, current approaches to multiplex single-molecule real-time sequencing require upstream quality improvement, which is obtained from multiple passes over the sequenced insert and significantly reduces the effective read length. In order to fully exploit the raw read length on multiplex applications, robust barcodes capable of dealing with the full single-pass error rates are needed.We present a method for designing sequencing barcodes that can withstand a large number of insertion, deletion and substitution errors and are suitable for use in multiplex single-molecule real-time sequencing. The manuscript focuses on the design of barcodes for full-length single-pass reads, impaired by challenging error rates in the order of 11%. The proposed barcodes can multiplex hundreds or thousands of samples while achieving sample misassignment probabilities as low as [Formula: see text] under the above conditions, and are designed to be compatible with chemical constraints imposed by the sequencing process.Software tools for constructing watermark barcode sets and demultiplexing barcoded reads, together with example sets of barcodes and synthetic barcoded reads, are freely available at www.cifasis-conicet.gov.ar/ezpeleta/NS-watermark CONTACT: ezpeleta@cifasis-conicet.gov.ar.


Roda F.,Centro Internacional Franco Argentino Of Ciencias Of La Informacion Y Of Sistemas | Musulin E.,Centro Internacional Franco Argentino Of Ciencias Of La Informacion Y Of Sistemas | Musulin E.,National University of Rosario
Expert Systems with Applications | Year: 2014

In the past years, the large availability of sensed data highlighted the need of computer-aided systems that perform intelligent data analysis (IDA) over the obtained data streams. Temporal abstractions (TAs) are key to interpret the principle encoded within the data, but their usefulness depends on an efficient management of domain knowledge. In this article, an ontology-based framework for IDA is presented. It is based on a knowledge model composed by two existing ontologies (Semantic Sensor Network ontology (SSN), SWRL Temporal Ontology (SWRLTO)) and a new developed one: the Temporal Abstractions Ontology (TAO). SSN conceptualizes sensor measurements, thus enabling a full integration with semantic sensor web (SSW) technologies. SWRLTO provides temporal modeling and reasoning. TAO has been designed to capture the semantic of TAs. These ontologies have been aligned through DOLCE Ultra-Lite (DUL) upper ontology, boosting the integration with other domains. The resulting knowledge model has a modular design that facilitates the integration, exchange and reuse of its constitutive parts. The framework is sketched in a chemical plant case study. It is shown how complex temporal patterns that combine several variables and representation schemes can be used to infer process states and/or conditions. © 2014 Elsevier Ltd. All rights reserved.


Musulin E.,Centro Internacional Franco Argentino Of Ciencias Of La Informacion Y Of Sistemas | Roda F.,Centro Internacional Franco Argentino Of Ciencias Of La Informacion Y Of Sistemas | Basualdo M.,Centro Internacional Franco Argentino Of Ciencias Of La Informacion Y Of Sistemas | Basualdo M.,National University of Costa Rica
Computers and Chemical Engineering | Year: 2013

In this work, an ontology-based framework for process supervision in chemical plants is presented. A conceptualization of equipment, control systems and hazards has been developed. This conceptual model includes the semantic of each modeled term in order to obtain a heavyweight ontology. The ontology has been formalized using Description Logic (DL) (Krötzsch et al., 2012). A knowledge-driven approach has been adopted in order to demonstrate how DL reasoning could be used to support process supervision, detecting and diagnosing faults, without the help of external agents. In the proposed approach, a DL reasoner adds implicit facts to the ontology through forward chaining reasoning, from the current measurements to the characterization of hazards. Additionally, the system is able to check knowledge consistency and formally explain the obtained results. The system functionality has been illustrated in the Tennessee Eastman process.benchmark. © 2013 Elsevier Ltd.


Tendela L.P.,Institute Fisica Rosario | Kaufmann G.H.,Institute Fisica Rosario | Kaufmann G.H.,Centro Internacional Franco Argentino Of Ciencias Of La Informacion Y Of Sistemas
Optics and Lasers in Engineering | Year: 2012

This paper presents a technique to investigate coating adhesion which combines a radial in-plane speckle interferometer and a micro-indentation test. The proposed technique is based on the measurement of the radial in-plane displacement field produced by a micro-indentation introduced on the coated surface of the specimen. Using steel specimens coated with a thin coating of epoxy paint and subjected to different adhesive conditions, it is demonstrated that digital speckle pattern interferometry can be successfully used to measure the small local deformations generated by a micro-indentation. An empirical model, which allows to quantify the adhesion of a given coated-substrate system by the proposed combined technique, is finally presented. © 2012 Elsevier Ltd. All rights reserved.

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