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Posters Students 2 October 24, Wednesday. Fabrício Martins Lopes Brazilian Ph.D. in Bioinformatics at USP Professor at UTFPR - Federal University of Technology.

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Presentation on theme: "Posters Students 2 October 24, Wednesday. Fabrício Martins Lopes Brazilian Ph.D. in Bioinformatics at USP Professor at UTFPR - Federal University of Technology."— Presentation transcript:

1 Posters Students 2 October 24, Wednesday

2 Fabrício Martins Lopes Brazilian Ph.D. in Bioinformatics at USP Professor at UTFPR - Federal University of Technology – Paraná Research interests: Bioinformatics, pattern recognition and image processing.

3 Current work Biological Systems Biological systems are complex; Several physical interactions; Components with different behaviors (functions); Different interactions (protein-protein, protein- DNA, etc.). GNs Inference Curse of dimensionality: there are much more genes than features; Expression data are only part of the information. A possible way: Data Integration

4 Gabriela Rodrigues Luiz Brazilian Bachelor in Biological Science Ph.D student in Bioinformatics UFMG (University of Minas Gerais)

5 Expression profile of blood and culture trypomastigotes of Trypanosoma cruzi by RNA-Seq The parasite Trypanosoma cruzi is the etiologic agent of Chagas disease, a neglected tropical disease. Trypomastigotes are the bloodstream circulating form that infect a wide variety of nucleated host cells. Recent advances in high-throughput sequencing offers the ability to discover new genes and transcripts and measure transcript expression in a single assay. However, even small RNA-seq experiments involving only a single sample produce enormous volumes of raw sequencing reads. The volume and complexity of data from RNA-seq experiments requires powerful computational tools: scalable, fast and mathematically principled analysis. This methodology could reveal the real complexity of the dynamics of expression of this parasite.

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7 Application of Machine Learning Techniques and Graph Algorithms towards Analysis of Protein-Protein Interaction Network Introduction and Objective: emergent properties of biological entities not readily explainable by the their constituent parts components are best characterized as interaction networks; interaction patterns being non-trivial and irregular Further comparison of networks inform us with the shared functional modules in species as well as change in functionality within a species over time Introduction and Objective: emergent properties of biological entities not readily explainable by the their constituent parts components are best characterized as interaction networks; interaction patterns being non-trivial and irregular Further comparison of networks inform us with the shared functional modules in species as well as change in functionality within a species over time Centrality Parameter computation Node parameters Network parameters Identification of connected components on perturbation, and Clustering Data: Interaction collected from STRING database for Plasmodium Falciparum Phases-sporozoite, gametophyte Data: Interaction collected from STRING database for Plasmodium Falciparum Phases-sporozoite, gametophyte Blast similarity Topology similarity Mapped Nodes Conserved Interaction Edge Current Scope of Improvement: Perturbation analysis Improvise on similarity score including neighborhood, expression data, gene ontology integrate tools into GUI Current Scope of Improvement: Perturbation analysis Improvise on similarity score including neighborhood, expression data, gene ontology integrate tools into GUI Acknowledgement Dr. Saikat Chakrabarti, Indian institute of Chemical Biology, for complete guidance and computational source Prof. Ujjwal Maulik, Jadavpur Univerisity for thesis supervision Acknowledgement Dr. Saikat Chakrabarti, Indian institute of Chemical Biology, for complete guidance and computational source Prof. Ujjwal Maulik, Jadavpur Univerisity for thesis supervision

8 Name: Geizecler Tomazetto Nationality: Brazilian Institution: Campinas University (UNICAMP) PhD Student is supported by grants from FAPESP Supervisor: Valéria Maia de Oliveira

9 Diversity analysis and bioprospection of microbial metagenome in H 2 -producing biogas fermenter Construction fosmid library Sequencing by means 454- pyrosequencing Domestic sewage treatment plant at Water Supply and Sanitation Company (SANASA) DNA extraction Characterization of the diversity: - Bacteria and Archaea Domains; - FeFe-hydrogenases. Bioinformatic: analysis of the community anaerobic, new hydrogenases and enzymes for biotechnological application - Cloning and expression of hydrogenases

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12 Glauco Vitor Pedrosa I am a PhD student in Computer Science at University of São Paulo (USP), Brazil. My research area is Image Processing and my ongoing projects are concerning to feature detection and content based image retrieval systems.

13 My ongoing PhD project aims at studying and exploring the Bag-of-Features approach to support content-based image retrieval for medical systems, considering the specialists' point of view and knowledge. The Bag-of-Features approach represents the image as an collection of local features. For this, first the image local features are extracted, and then they are assigned to their nearest matching term from a visual vocabulary. The image feature vector is represented by a histogram of features detected in the image. Glauco Vitor Pedrosa

14 Govinda Murali 4 th year Undergraduate Student Department of Physics & Meteorology Indian Institute of Technology Kharagpur India

15 Direct laser pruning of Nanostructures and study of their optical and electrical properties Under Dr. Sow Chorng Haur, Nanomaterials Research lab, National University of Singapore Practical Applications Photodetectors - Image sensing Biophysics – optical tweezers used for study of extension and twisting of DNA & blood cells

16 General Information Name: Guilherme da Silva Pereira City: Campina Grande – State: Paraíba (Northeast of Brazil) Graduate in Biology State University of Paraíba (UEPB), Campina Grande, Paraíba Master’s degree in Genetics and Plant Breeding University of São Paulo (USP), College of Agriculture “Luiz de Queiroz” (ESALQ), Piracicaba, São PauloESALQ PhD student in Genetics and Plant Breeding – USP/ESALQ

17 Current Work Title: QTL mapping in sweet sorghum and synteny with sugarcane Objectives: To found QTL related to production and bioenergy characters in sorghum To compare genomes (synteny) and QTL locations between both species Data: Sorghum population: 225 RIL (recombinant inbred lines) individuals Genotyping-by-sequencing (GBS) – Illumina Sugarcane population: 200 F 1 individuals Genotyping by iPLEX MassARRAY – Sequenom Phenotypes: e.g. production, sugar and fiber contents, ethanol production

18 Lic. Inti Anabela Pagnuco Ph.D. student in Electronic Engineering. Argentina School of Engineering, Mar del Plata National University, Argentina. National Council of Scientific and Technical Research, CONICET, Argentina.

19 Current work: Supervised classification techniques applied to high density genetic data. Advantages of balanced classifier design on microarray data classification Decision Making for the Semi-automatic Clustering of large Protein Superfamilies

20 Ivo Koga LIS-IC-UNICAMP BRAZIL

21 Ivo Koga – LIS – IC – UNICAMP - BRAZIL Problem - heterogeneity and data deluge from environmental monitoring scenarios Objective – use Enterprise Service Bus (ESB) and Complex Event Processing (CEP) to integrate and process events from sensor data

22 Thanks! Ivo Koga Advisor: Claudia Bauzer Medeiros

23 JAYANTA KUMAR PAL C ENTER FOR S OFT C OMPUTING R ESEARCH I NDIAN S TATISTICAL I NSTITUTE K OLKATA, I NDIA J UNIOR R ESEARCH FELLOW I NDIAN

24 Current Research Area MiRNA and its role on cancer – Computational Approaches for Identifying Cancerous miRNA Expressions – miRNA selection for cancer classification

25 T HANK Y OU

26 Name: Joana E. Gonzales Malaverri Advisor: Claudia M. Bauzer Medeiros Nationality: Peruvian Academic institution: Institute of Computing, UNICAMP

27 A Provenance-Based Approach: helping to measure the quality of data Goal: Present an approach based on the use of provenance that help on the measurement of the quality of a data product. Laboratory of Information System (LIS)

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29 Subcritical hydrolysis with water/CO 2 of agricultural residues for the production of fermentable sugars Sugarcane bagasse Pressed palm fiber Coconut husk Defatted grape seed Sugarcane bagasse Pressed palm fiber Coconut husk Defatted grape seed

30 Eng. Julio César Santos dos Anjos Master in Computer Science at UFRGS/2012 PhD Student at UFRGS GPPD Member MapReduce Research Group Member Nationality: Brazilian

31 MapReduce on Heterogeneous Environments + Volatility + Stochastic Schedulers = MR-S++ MapReduce with Tasks Stochastic Scheduler

32 Jurandy Almeida REasoning for COmplex Data – RECOD Lab Institute of Computing, University of Campinas – UNICAMP Campinas, SP – Brazil

33 e-phenology e-phenology: The application of new technologies to monitor plant phenology and track climate changes in the tropics * (a) use of new technologies of environmental monitoring - remote phenology monitoring systems (b) provide models, methods, and algorithms to support management, integration, and analysis of remote phenology data (c) create a protocol for a future Brazilian Network - long term phenology monitoring program Patrícia Morellato Phenology Laboratory Dept. of Botany UNESP, Rio Claro, SP Ricardo Torres RECOD Lab Institute of Computing UNICAMP, Campinas, SP * Supported by the FAPESP-Microsoft Research Virtual Institute

34 Sílvia Cristina Dias Pinto PostDoc Institute of Mathematics and Statistics – IME University of São Paulo – USP Brazil

35 3D Shape Analysis using Wavelets – 3D Facial Expression (ICIP 2011) – Supra-orbital Margin Submitted to IEEE Transactions on Information Forensics and Security

36 Kartick Chandra MONDAL Nationality: INDIAN 4th Year PhD Student I3S Laboratory (CNRS/UNSA UMR-7271) University of Nice Sophia-Antipolis, Nice, France https://sites.google.com/site/mrkartickchandramondal/ Supervised by: Nicolas PASQUIER Head of KEIA Team, Pole GLC, Laboratory I3S, UNSA

37 Current research interest:  Developing new closure based approaches for frequent pattern mining, association rule mining and biclustering in one run.  Analyzing images using our own closure based approaches.  Finding unknown Protein Interactions from HIV-Human Protein Interaction Data.  Using different data mining task, finding the relationships between ontological terms and gene annotation from integrated gene expression data.  Finding biclusters and ranking genes from gene expression data using multi- object methods. Thank you for your kind interest!!!

38 Katti Faceli Associate professor – Department of Computing Federal University of São Carlos (UFSCar) at Sorocaba Brazil

39 Main research project:  An hybrid intelligent system for clusters’ identification, which integrates ensembles, multiobjective optimization and model selection strategies Other current works:  Complexity of gene expression data and model selection for clustering  Visualization of a set of clustering solutions  Classification of e-tongue sensor data

40 Name: Leonardo Galindo Gonzalez Nationality: Colombia Institution: University of Alberta, Canada

41 Flax genome sequencing and annotation Transposable element studies Reverse genetics to find mutations in fiber development genes

42 Lucas Antiqueira PhD Computational Physics, MSc/BSc Computer Science Post-doctoral associate at: Instituto de Ciências Matemáticas e de Computação (ICMC) Universidade de São Paulo (USP), São Carlos, Brazil

43 Current work – Neuroinformatics Brain sampling through functional networks – Bioinformatics Integrated analysis (transcriptome + metabolome + proteome) – Natural language processing Text analysis for, e.g., authorship identification and automatic summarization Complex networks

44 Luiz Gomes – UNICAMP (Brazil) Declarative queries for Information Retrieval over graph databases

45 Defining GIRDBs – Graph Information Retrieval DataBases Representing structured (e.g. relational) and unstructured (e.g. documents) data as graphs Mapping IR metrics (relevance, reputation, similarity, etc.) into graph analysis tasks Integrating the metrics in a declarative query language Optimizing/Processing queries Applying the framework to CMSs, e-health, biodiversity, recommendation systems, etc.

46 Industrial Engineering and Operation Research University of California, Berkeley I am originally from China. Focusing on data analysis research.

47 On-going research project Berkeley Architecture Department Building  Data of every plug load in the 4 th floor for each minute Analysis  Applying clustering to detect the pattern.  Time Series Analysis

48 Maiana de Oliveira Cerqueira e Costa  M.Sc. in Computational Modeling at Laboratório Nacional de Computação Científica (Petrópolis, Brazil).  B.Sc. in Biological Sciences at Universidade Federal da Bahia (Salvador, BA).

49 Current work and interests Previous works  Participated in the annotation of a database dedicated to type IV secretion systems (http://www.t4ss.lncc.br);  Performed phylogenetic studies on the evolution of Gymnotiformes.  Comparative genomics of Staphylococcus aureus ST239 clinical isolates.


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