20th Annual International Conference on
Intelligent Systems for Molecular Biology
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Industry Posters

Industry Posters Display Schedule:

Odd Numbered posters:
  • Industry Poster Set-up timeframe: Sunday, July 15, 7:30 a.m. - 10:00 a.m.
  • Author poster presentations: Monday, July 16, 12:40 p.m. - 2:30 p.m.
Even Numbered posters:
  • Industry Poster Set-up timeframe: Sunday, July 15, 7:30 a.m. - 10:00 a.m.
  • Author poster presentations: Tuesday, July 17, 12:40 p.m. - 2:30 p.m.
Industry posters:
On display Sunday, July 15, 10:00 a.m. through Tuesday, July 17, 2:30 p.m.


Poster Display Size: When preparing accepted posters please note that your poster should not exceed the following dimensions: 46 inches wide by 45 inches high. There will be 2 posters per side on the each poster board. One poster will be an odd number and the other will be an even number. View a diagram of the the poster board in pdf format here.


AA01 - Optimized solutions for accelerating de novo assembly and read mapping
Date: Monday, July 16, 12:40 p.m. - 2:30 p.m.:
Presenting author: Mikael Flensborg, CLC Bio, Denmark

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CLC Assembly Cell is a high-performance computing solution for read mapping and de novo assembling of NGS data. It is a command line tool utilizing SIMD instructions to parallelize and accelerate the assembly and mapping algorithms, making the program one of the fastest NGS assemblers at present - and it is continuously developing.

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AA02 - GRIDBase: A platform for scientific data integration, curation, and dissemination
Date: Tuesday, July 17, 12:40 p.m. - 2:30 p.m.:
Presenting author: Jeff Milton, Genentech, United States

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Capturing bioinformatics workflows in a web framework that highlight collaborative efforts.

Integrating heterogeneous environments: MySQL, Oracle, Excel etc... web accessible curation platform and exporting into any environment.

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AA03 - BioJS for representing biological information
Date: Monday, July 16, 12:40 p.m. - 2:30 p.m.:
Presenting author: Rafael Jimenez, EMBL-EBI, United Kingdom

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BioJS is an open source JavaScript library of graphical components to represent biological information. BioJS as project encourages developing standard components that can be easily reused and shared by the bioinformatics community. This demo will present and demonstrate how to use and develop graphical components with BioJS.

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AA04 - Interactive Visual Analysis of NGS Data using Trackster and Galaxy
Date: Tuesday, July 17, 12:40 p.m. - 2:30 p.m.:
Presenting author: Jeremy Goecks, Emory University, United States

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The Trackster visual analysis environment couples visualization and next-generation sequencing (NGS) analysis tools to enable interactive, user-friendly experimentation on NGS data. We will demonstrate how Trackster can be used for interactive RNA-seq analysis, real-time SNP calling, and other common NGS analyses.

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AA05 - Persephone: a GUI to Genomic Data
Date: Monday, July 16, 12:40 p.m. - 2:30 p.m.:
Presenting author: Maxim Troukhan, Ceres, Inc., United States

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A stand-alone graphical application visualizes genomic data of different kinds: genetic maps, genomic sequences, gene models, QTLs, RNA-seq, synteny, SNPs, etc. Data is stored in an Oracle database and presented by a high-performance graphical engine in a smooth, intuitive way.

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AA06 - VisANT: Integrative network platform to connect genes, drugs, diseases and therapies
Date: Tuesday, July 17, 12:40 p.m. - 2:30 p.m.:
Presenting author: Zhenjun Hu, Bioinformatics Program, United States

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VisANT is a web-based systems biology workbench for integrative analysis of biological networks. It provides rich functionalities for network visualization, analysis and inference with integrated biological knowledge. New features in VisANT allow easy navigation and networking between genes, drugs and their targets, diseases and therapies. VisANT is available at http://visant.bu.edu

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AA07 - GenomeSpace: An environment for frictionless bioinformatics
Date: Monday, July 16, 12:40 p.m. - 2:30 p.m.:
Presenting author: Michael Reich, Broad Institute, United States

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GenomeSpace is a connectivity layer between genomics analysis tools. Using GenomeSpace, researchers can construct analyses requiring data transfer between diverse tools such as Web applications, desktop packages, and scripts. GenomeSpace provides cloud-based storage and handles file-format compatibility automatically. The GenomeSpace community includes Cytoscape, Galaxy, GenePattern, Genomica, IGV, UCSC, and others.

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AA08 - Vector NTI – Sequence Analysis & Design in Synthetic Biology
Date: Tuesday, July 17, 12:40 p.m. - 2:30 p.m.:
Presenting author: Raymond Tecotzky, Life Technologies, Inc., United States

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Vector NTI® software is a completely integrated suite of sequence analysis and design tools that help you manage, view, analyze, transform, share, and publicize diverse types of molecular biology data, all within one graphically rich analysis environment.

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AA09 - GenomeRNAi: A Phenotype Database for Large-scale RNAi Screens
Date: Monday, July 16, 12:40 p.m. - 2:30 p.m.:
Presenting author: Esther Schmidt, German Cancer Research Center (DKFZ), Germany

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RNA interference (RNAi) allows systematic screening for loss-of-function phenotypes on a genome-wide scale, providing a rich source of functional annotation. The GenomeRNAi database (www.genomernai.org) holds RNAi-induced phenotype data from published screens for human and drosophila. Data on RNAi reagents are provided, as well as phenotype download options and DAS-enabled visualization.

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AA10 - Use of Genome-scale Metabolic Reconstruction coupled with Characterized Parts to enable Synthetic Engineering of Organisms
Date: Tuesday, July 17, 12:40 p.m. - 2:30 p.m.:
Presenting author: Kevin Clancy, Life Technologies, United States

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Rational engineering of organisms requires a genome-wide understanding of the organism’s physiology. We have applied a combination of genome sequencing, assembly and annotation, metabolic modeling, and synthetic biology methods to engineer the algal strain Synechococcus elongatus PCC7942. This approach can be readily used for engineering known and novel organisms.

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AA11 - MOPED and SPIRE: Proteomics data to knowledge to action
Date: Monday, July 16, 12:40 p.m. - 2:30 p.m.:
Presenting author: Winston Haynes, Seattle Children's, United States

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We present two web-based, publicly available proteomics resources: MOPED (http://moped.proteinspire.org), a new and expanding protein data resource that enables rapid browsing of expression information from publicly available studies on humans and model organisms; and SPIRE (https://www. proteinspire.org), a mass spectrometry proteomics analysis platform.

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AA12 - Overview of The Universal Protein Resource (UniProt)
Date: Tuesday, July 17, 12:40 p.m. - 2:30 p.m.:
Presenting author: Benoit BELY, EBI (European Bioinformatics Institut), United Kingdom

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1- A description of the UniProt.
2- New developments, functionalities and design.
3- Accessing UniProt using simple query syntax. The user will be presented with helpful suggestions and hints.
4- Exploration of sequence similarity searches, alignments and ID mapping tools provided.

This demonstration will also encourage user interaction and feedback.

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AA13 - The Immune Epitope Database and Analysis Resource (IEDB)
Date: Monday, July 16, 12:40 p.m. - 2:30 p.m.:
Presenting author: Nima Salimi, The Immune Epitope Database and Analysis Resource, United States

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The IEDB contains data related to antibody and T cell epitopes for humans, non-human primates, rodents, and other animal species. It also hosts tools to analyze data and predict epitopes. The workshop will present an introduction to the website’s features and highlights of the latest IEDB release.

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AA14 - MaGnET and BaGET: Intuitive “Exploration-Style Analysis” of Functional Genomic Data for Malarial and Bacterial Infectious Disease Agents
Date: Tuesday, July 17, 12:40 p.m. - 2:30 p.m.:
Presenting author: Dietlind Gerloff, University of California, Santa Cruz, United States

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Our free "exploration tools" facilitate innovative intuitive analysis of different types of functional genomic data for Plasmodium falciparum (MaGnET), and 13 species of oral disease bacteria (BaGET). Through interactively modifiable selections, simple visual and integrated displays, we want to allow bench biologists to take data “browsing” to a next level.

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AA15 - Desktop solution for genome-wide interaction search
Date: Monday, July 16, 12:40 p.m. - 2:30 p.m.:
Presenting author: Adam Kowalczyk, , Australia

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We introduce GWIS, software enabling an exhaustive scan of all pairwise interactions in GWAS with 500K SNPs and 5K samples, in under 30mins/3hours using GPU/CPU, rather than days. Multiple filters are combined with secondary analysis: false-positive control, detection of interacting LD blocks or genes and integration with on-line genome resources.

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AA16 - Protein network analysis with CentiScaPe and Interference plug-ins: the case of leukocyte integrin activation network
Date: Tuesday, July 17, 12:40 p.m. - 2:30 p.m.:
Presenting author: Giovanni Scardoni, Center for BioMedical Computing, University of Verona, Italy

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We show the combined use of CentiScaPe and Interference Cytoscape plugins for topological analysis of biological networks. Our protocol allows identifying the most relevant nodes and their reciprocal influence in a network. This may hamper gaining a deeper knowledge on complex biological processes and help to drive lab experiments.

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AA17 - BioGPS: a community-driven customizable gene annotation portal
Date: Monday, July 16, 12:40 p.m. - 2:30 p.m.:
Presenting author: Chunlei Wu, The Scripps Research Institute, United States

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BioGPS, http://biogps.org, is a centralized gene portal for aggregating distributed online gene annotation resources. Users are allowed to select the resources they need and organize them into a customizable gene-report page. Moreover, BioGPS embraces the principle of community intelligence, enabling any user to easily contribute to the BioGPS platform by submitting new resources as "plugins".

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