| Accepted Posters |
| Category 'D'- Comparative Genomics' |
| Poster D01 |
| Ligand-receptor binding mechanism of self-incompatibility in Maloideae subfamily |
| Jahanshah Ashkani- University of the western cape |
| No additional authors |
| Short Abstract: In flowering plants, a major mechanism to prevent inbreeding is known as self-incompatibility (SI). This study aims to get a clearer understanding of the ligand-receptor binding mechanism of SI in Maloideae using molecular evolutionary, homology modelling and protein-protein docking methods focussing on the hypervariable (HV) regions of SLF/SFBB. |
| Long Abstract: Click Here |
| Poster D02 |
| Do Orthologous Genes Have Orthologous Promoters? |
| Youlian Pan- National Research Council Canada |
| Sieu Phan (National Research Council Canada, Institute for Information technology); Fazel Famili (National Research Council Canada, Institute for Information technology); Anne Lenferink (National Research Council Canada, Biotechnology Research Institute); Maria Jaramillo (National Research Council Canada, Biotechnology Research Institute); Maureen O’connor-Mccourt (National Research Council Canada, Biotechnology Research Institute); |
| Short Abstract: This poster compares the promoters of orthologous genes among various vertebrates (humans, chimpanzees, mice, rats, dogs, chicken, and zebrafish) based on existence of transcription factor binding sites. Unlike coding regions, promoters of orthologous genes are very different. This difference is likely related to phylogenetic distance between the organisms compared. |
| Long Abstract: Click Here |
| Poster D03 |
| Are There Rearrangement Hotspots in the Human Genome? |
| Max Alekseyev- University of California, San Diego |
| Pavel Pevzner (University of California, San Diego, Department of Computer Science & Engineering); |
| Short Abstract: None On File |
| Long Abstract: Click Here |
| Poster D04 |
| In-paralogs observed today tend to have arisen in more recent time |
| Stanislav Vershenya- University of Wuerzburg |
| Tobias MĂĽller (University of Wuerzburg, Bioinformatics); Joerg Schultz (University of Wuerzburg, Bioinformatics); |
| Short Abstract: In-paralogs from 21 species, mostly vertebrae, were compared to each other. We were able to time the appearance of in-paralogs and also quantify them. Most of in-paralogs are relatively young and their amount is not growing proportionally with increasing the evolutionary distance between species. |
| Long Abstract: Click Here |
| Poster D05 |
| Domain rearrangement and domain creation in the evolution of new proteins |
| Diana Ekman- Stockholm University |
| Åsa K. Björklund (Stockholm University, Department of Biochemistry and Biophysics); Arne Elofsson (Stockholm University, Department of Biochemistry and Biophysics); |
| Short Abstract: The metazoan lineage have unusually high rates of domain architecture creation, and the architectures contain relatively large numbers of domains. The introduction of domains amenable to exon shuffling seems to explain some of the increase. Further, most domain families are ancient and de novo domain creation is a rare event. |
| Long Abstract: Click Here |
| Poster D06 |
| Distribution and Mutation of Simple Sequence Repeats in Yersinia Genome |
| Pankaj Kumar- Centre for DNA Finger Printing and Diagnostics |
| H. A Nagarajaram (Centre for DNA Finger Printing and Diagnostics, Laboratory of Computational Biology); |
| Short Abstract: We present an in-depth study of Simple Sequence Repeats (SSRs) in Yersinia genomes for the distribution and polymorphism of SSRs. Cross-genome comparisons of equivalent SSRs revealed 391 polymorphic SSRs that form the evidences of inter-species and intra-species SSR polymorphisms which further reveal association of SSRs in the pathogenecity and evolution of Yersinia pestis. |
| Long Abstract: Click Here |
| Poster D07 |
| The role of alternative branches (alternologs) in the evolution of metabolism: mixing genomics and network tools |
| Juan DĂaz-MejĂa- University of Toronto |
| Georgina Hernandez-Montes (Instituto de BiotecnologĂa, UNAM, Departamento de IngenierĂa Celular y Biocatálisis); Ernesto PĂ©rez-Rueda (Instituto de BiotecnologĂa, UNAM, Departamento de IngenierĂa Celular y Biocatálisis); Lorenzo Segovia (Instituto de BiotecnologĂa, UNAM, Departamento de IngenierĂa Celular y Biocatálisis); |
| Short Abstract: In this work a genomic perspective is combined with network tools to evaluate the contribution of alternative branches (alternologs) on the evolution of amino acids biosynthesis in the three domains of life. This strategy can be extended not only to the whole metabolism but also to other biological processes. |
| Long Abstract: Click Here |
| Poster D08 |
| Genome-scale comparative analysis of the predicted secretomes of 19 sequenced lactic acid bacteria |
| Miaomiao Zhou- Centre for Molecular and Biomolecular Informatics, Radboud University Nijmegen Medical Centre, The Netherlands |
| Daniel Theunissen (Centre for Molecular and Biomolecular Informatics, Radboud University Nijmegen Medical Centre); Michiel Wels (Centre for Molecular and Biomolecular Informatics, Radboud University Nijmegen Medical Centre, , TI Food and Nutrition, and Kluyver Centre for Genomics of Industrial Fermentation, Wageningen,); Roland Siezen (Centre for Molecular and Biomolecular Informatics, Radboud University Nijmegen Medical Centre, , TI Food and Nutrition, and Kluyver Centre for Genomics of Industrial Fermentation, Wageningen,NIZO food research, Ede,); |
| Short Abstract: The secretome in 19 lactic acid bacteria was predicted using LocateP. The putative secreted proteins were clustered by combining various clustering tools and phylogeny detectors. In-depth comparative analyses of the protein families were performed to understand the molecular evolution, diversity, function and adaptation of these bacteria to specific environments. |
| Long Abstract: Click Here |
| Poster D09 |
| Genome Space: Mapping and Analysis of Environmental Genomic Data |
| Robert Beiko- Dalhousie University |
| Suwen Wang (Dalhousie University, Computer Science); Greg Smolyn (Dalhousie University, Computer Science); Harman Clair (Dalhousie University, Computer Science); Christian Blouin (Dalhousie University, Computer Science); Stephen Brooks (Dalhousie University, Computer Science); Jacqueline Whalley (Auckland University of Technology, Computer Science); |
| Short Abstract: Environmental genomic techniques can be used to test relationships between species diversity, metabolic function, and the environment. We have developed Genome Space, a new application that allows the overlay of genetic and environmental data on a digital map. Here we demonstrate its application to various environmental genomic data sets. |
| Long Abstract: Click Here |
| Poster D10 |
| Evolution of microRNA targeting in the fish lineage |
| Qingqing Wang- Harvard Medical School / Broad Institute of MIT and Harvard |
| Ana Paula Leite (MIT / Broad Institute of MIT and Harvard, Department of Biology); Aviv Regev (MIT / Broad Institute of MIT and Harvard, Department of Biology); |
| Short Abstract: Studying the co-evolution of microRNAs and their targets can unravel the mechanisms underlying regulatory evolution. We reconstruct the evolutionary history of the microRNA regulatory network across four fish species - Danio rerio, Takifugu rubripes, Gasterosteus aculeatus and Oryzias latipes– highlighting the complementary roles of conservation and evolvability in regulatory function. |
| Long Abstract: Click Here |
| Poster D11 |
| CGR:a tool for estimating phylogenies using Conditioned Genome Reconstruction |
| Ajanthah Sangaralingam- University of Liverpool |
| Brian Golding (McMaster University, Biology); David Bryant (University of Auckland, MAahematics); Edward Susko (Dalhousie university, Mathematics and statistics); Matthew Spencer (University of Liverpool, Biological Sciences); |
| Short Abstract: A web based bioinformatics tool has been developed to allow phylogenetic reconstruction from gene content data by calculating conditioned logdet distances. The tool allows small datasets to be analysed. For the analysis of larger datasets the source code is available to download from the website. |
| Long Abstract: Click Here |
| Poster D12 |
| GenoSets: A Data Warehouse for Collection and Visual Analysis of Genomic Data |
| Aurora Cain- University of North Carolina at Charlotte |
| Robert Kosara (UNCC, Computer Science); Cynthia Gibas (UNCC, Bioinformatics); |
| Short Abstract: GenoSets is a system that can bring together results from commonly used genome analysis tools into a queryable format with multiple visualizations. The visualizations provide advanced selection techniques including the ability to select classes of features that meet multiple criteria and perform set comparisons on those classes. |
| Long Abstract: Click Here |
| Poster D13 |
| Identification of evolutionary hotspots in Mycobacteria based on gene-to-gene comparison and oligonucleotide usage parameters. |
| Hamilton Ganesan- University of Pretoria |
| No additional authors |
| Short Abstract: By using various oligonucleotide usage parameters it was found that classification of Mycobacterial genes into various functional categories is possible . An further extension of this technique may also permit the differentiation between virulent and avirulent strains of mycobacteria. |
| Long Abstract: Click Here |
| Poster D14 |
| metaTIGER: a metabolic evolution resource and its application to the chromalveolate evolution |
| John Whitaker- University of Leeds |
| David Westhead (University of Leeds, Institute of Molecular and Cellular Biology); Glenn McConkey (University of Leeds, Institute of Molecular and Cellular Biology); |
| Short Abstract: metaTIGER is a collection of metabolic profiles and phylogenomic information on a taxonomically diverse range of eukaryotes. metaTIGER provides novel facilities for viewing and comparing the metabolic profiles. The quality of results obtainable from metaTIGER is demonstrated through novel and exciting insight into chromalveolate evolution. |
| Long Abstract: Click Here |
| Poster D15 |
| PhyloPat version 49 – An updated version contains gene neighborhood |
| Tim Hulsen- Radboud University Nijmegen Medical Centre |
| Peter Groenen (NV Organon, MDI); Wynand Alkema (NV Organon, MDI); Jacob de Vlieg (Radboud University Nijmegen Medical Centre, CMBI); |
| Short Abstract: PhyloPat is an easy-to-use webserver, which can be used to query the orthologies of all 39 complete genomes within the EnsMart database using phylogenetic patterns.This enables the determination of sets of genes that occur only in certain evolutionary branches. PhyloPat version 49 also shows gene neighborhood information for all genes. |
| Long Abstract: Click Here |
| Poster D16 |
| Visualisation of 454 data in prokaryotic genome resequencing projects |
| Armin Deffur- National Bioinformatics Network, Central Node |
| No additional authors |
| Short Abstract: A method of analysing the output of the Newbler assembler (gsMapper) in prokaryote resequencing projects using 454 pyrosequencing is presented. Sequence assembly output is read into a database, which is queried to allow visualisation of quality metrics, annotation information, sequence differences, and reads aligned at positions of sequence difference. |
| Long Abstract: Click Here |
| Poster D17 |
| Gen Team Tree an Its Representation |
| Hon Wai Leong- National University of Singapore |
| Melvin Zhang (National University of Singapore, Department of Computer Science); Hon Wai Leong (National University of Singapore, Department of Computer Science); |
| Short Abstract: Gene teams are groups of genes conserved across several genomes. Current work focuses on finding gene teams given a distance parameter. Our Gene Team Tree represents ALL possible gene teams and visualize them in a compact tree. We have used this visualize operons in E. Coli and other applications. |
| Long Abstract: Click Here |
| Poster D18 |
| GenColors: Annotation and Comparative Genomics Made Easy |
| Marius Felder- Leibniz Institute for Age Research - FLI Leibniz |
| Alessandro Romualdi (SIRS-Lab GmbH, Research); Gernot Glöckner (Leibniz Institute for Age Research - FLI Leibniz, Genome Analysis); Matthias Platzer (Leibniz Institute for Age Research - FLI Leibniz, Genome Analysis); Jürgen Sühnel (Leibniz Institute for Age Research - FLI Leibniz, Biocomputing); |
| Short Abstract: GenColors is a web tool initially aimed at the annotation and analysis of prokaryotic genomes with an emphasis on genome comparison. As a new feature the system has now been adapted to handle also eukaryotic genomes. |
| Long Abstract: Click Here |
| Poster D19 |
| A Comparative Study of Plasmodium species that infect human and rodents: Biochemical Approach |
| Segun Fatumo- Covenant University Ota Nigeria |
| Kitiporn Plaimas (University of Heidelberg, IPMB); Gunnar Schramm (DKFZ, Theoretical Bioinformatics); Rainer Konig (University of Heidelberg, IPMB); Ezekiel Adebiyi (Covenant University, Ota, CIS); |
| Short Abstract: we constructed the metabolic networks of five species of plasmodium infecting human and rodents respectively, the essential reactions were identified using an improved version of our algorithm (fatumo et al 2008). Consequently, we identified the uniqueness in each of the plasmodium specie |
| Long Abstract: Click Here |
| Poster D20 |
| Characteristics and evolution of unique genes in plants |
| David Armisen- INRA |
| Alain Lecharny (INRA, URGV); SĂ©bastien Aubourg (INRA, URGV); |
| Short Abstract: Using motif conservation and local sequence alignments, we characterized orthologous genes conserved as unique in A.thaliana and O.sativa. Short CDS, high intron density and, abnormal TATA-box and TELO-box presence characterize these genes. Phylogenetic profile, high conservation rate and structural features suggest a particular origin and house-keeping related functions. |
| Long Abstract: Click Here |
| Poster D21 |
| Computationally finding inversion breakpoints using mated pairs |
| Allison Regier- University of Notre Dame |
| Scott Emrich (University of Notre Dame, Computer Science and Engineering); Nora Besansky (University of Notre Dame, Biological Sciences); |
| Short Abstract: Finding inversion breakpoints is not a well-defined process but is necessary to understand the full extent of variation between genomes. Assembly-to-assembly comparison may be confounded by repeats flanking inversions. Our method uses mate-pair information from double-barreled shotgun sequencing to identify breakpoints between two strains of the malaria mosquito. |
| Long Abstract: Click Here |
| Poster D22 |
| Statistical Properties of the Generalized Adjacency Criterion and its Use in Phylogenetics and the Detection of Gene Clusters |
| Ximing Xu- University Of Ottawa |
| Zhenyu Yang (University of Ottawa, Mathematics and Statistics); Qian Zhu (University of Ottawa, Biochemistry); David Sankoff (University of Ottawa, Mathematics and Statistics); |
| Short Abstract: Our definition of gene clusters controls the trade-off between increasing gene content versus conserving gene order. Generalized adjacency (GA) holds for two genes separated by less than t other genes on a chromosome. We study the statistical properties of clusters defined by GA in two genomes. |
| Long Abstract: Click Here |
| Poster D23 |
| Graph-theoretic tools for reducing the size of the DCJ Median Problem |
| Wei Xu- University of Ottawa |
| No additional authors |
| Short Abstract: The NP-hard median problem is at the heart of rearrangement-based phylogenetics. We are developing analytic criteria see if a median problem is tractable and fast algorithms that work for such cases. This is based on finding certain "non-mixing" subgraphs in the four-coloured multiple breakpoint graph representing the median problem. |
| Long Abstract: Click Here |
| Poster D24 |
| Mauve Contig Mover: a method for ordering draft genomes using whole genome alignment |
| Anna Rissman- University of Wisconsin - Madison |
| Bob Mau (University of Wisconsin - Madison, Genome Center of Wisconsin); Bryan S. Biehl (University of Wisconsin - Madison, Genome Center of Wisconsin); Aaron E. Darling (University of Queensland, Institute of Molecular Bioscience); Jeremy D. Glasner (University of Wisconsin - Madison, Genome Center of Wisconsin); Nicole T. Perna (University of Wisconsin - Madison, Genome Center of Wisconsin); |
| Short Abstract: Mauve Contig Mover is a new algorithm for ordering and orienting draft genome contigs based on whole genome alignment with a closely related reference sequence. We applied this and other methods to draft sequences from several enterobacteria to compare performance and illustrate strengths of this algorithm and visualization environment. |
| Long Abstract: Click Here |
| Poster D25 |
| Modeling gene content evolution among homologous chromosomal segments |
| Suja Thomas- Ph.D Candidate/University of North Carolina at Chapel Hill |
| No additional authors |
| Short Abstract: How well can one predict the occurrence of a gene in an incompletely characterized genome based on its presence in one or more related, better-characterized species? To answer this, here we study a probabilistic phylogenetic model of gene loss and gain among a set of homologous chromosomal segments. |
| Long Abstract: Click Here |
| Poster D26 |
| Characterizing the Distinguishability of Prokaryotic Genomes |
| Scott Perry- Dalhousie University |
| No additional authors |
| Short Abstract: Robust DNA classification techniques are of vital importance to the analysis of metagenomic samples. In order to characterize the distinguishability of genomes based on genome signature, we have used support vector machines to perform pairwise comparisons of putative orthologs from 56 members of the alphaproteobacteria. |
| Long Abstract: Click Here |
| Poster D27 |
| Genome Aliquoting |
| Robert Warren- University of Ottawa |
| David Sankoff (University of Ottawa, Mathematics and Statistics); |
| Short Abstract: Occasionally, a genome B will convert into an n-fold replicate of itself, creating a polyploid containing n identical copies of every gene and every chromosome. We suggest a solution to the genome aliquoting problem: infer B given a present-day descendent A with a rearranged genome. |
| Long Abstract: Click Here |
| Poster D28 |
| Bounding Generalized Transpositions in Genome Rearrrangement by DCJ |
| Sophia Yancopoulos- The Feinstein Institute for Medical Research |
| Oliver Attie (New York University, Biology); |
| Short Abstract: We present algorithms to compute upper and lower bounds on the number generalized transpositions (GT) for genome rearrangement by the double cut and join (DCJ) operation. We show our results in transforming strains of Francisella tularensis. All GT in the maximal scenario have transposases at breakpoints of the transformation. |
| Long Abstract: Click Here |
| Poster D29 |
| The effect of massive gene loss following whole genome duplication |
| Chunfang Zheng- University of Ottawa |
| P. Kerr Wall (Penn State University, Biology); Jim Leebens-Mack (University of Georgia, Plant Biology); Claude dePamphilis (Penn State University, Biology); Victor Albert (University of Oslo, Joint Center for Bioinfotmatics); David Sankoff (University of Ottawa, Mathematics and Statistics); |
| Short Abstract: We apply Guided Genome Halving algorithms to thousands of gene sets, each containing two paralogs in the poplar genome and their single ortholog from the grapevine genome, to reconstruct the poplar ancestor. We show how to incorporate gene sets missing one paralog or the ortholog. |
| Long Abstract: Click Here |
| Poster D30 |
| Combined Analysis of Comparative Genomic Hybridization and Gene Expression in Colorectal Cancer Progression |
| Mi-Kyung Lee- College of Oriental Medicine |
| Mi-Kyung Lee (College of Oriental Medicine, Department of Physiology); HyunSu Bae (College of Oriental Medicine, Department of Physiology); Yang-Seok Kim (College of Oriental Medicine, Department of Physiology); |
| Short Abstract: Several researches have verified the genomic alterations in colorectal cancer patients. However, there was no research that provides the insights of systematic understanding of relationship between genomic alteration and gene expression. So, we have tried to demonstrate whether any change in expression level can be induced from genomic alterations. |
| Long Abstract: Click Here |
| Poster D31 |
| RNA StrAT: RNA Structure Analysis Toolkit |
| Sylvie Hamel- University of Montreal |
| Valentin Guignon (University of Montreal, Computer Science and Operations Research); Cedric Chauve (Simon Fraser University, Mathematics); |
| Short Abstract: This poster presents the web server RNA StrAT (RNA Structure Analysis Toolkit). This server offers tools to perform both RNA secondary structures comparison and database search using an edit distance algorithm that considers a wide range of edit operations. This website is freely available at http://www-lbit.iro.umontreal.ca/rnastrat/ |
| Long Abstract: Click Here |
| Poster D32 |
| Evolutional insight from reconstruction of essential cellular functions |
| YUSUKE AZUMA- Tokyo Institute of Technology |
| No additional authors |
| Short Abstract: Essential cellular functions (ECFs) to sustain an ideal cell were derived by the comparative genomics and KEGG pathway analysis. The ECFs are composed of the highly conserved functions in bacterial genomes and the upstream functions that provide necessary compounds to maintain the conserved functions. Evolutional aspects of ECFs are discussed. |
| Long Abstract: Click Here |
| Poster D33 |
| Assembly-based comparative validation of related genome sequences |
| Michael Olson- University of Notre Dame |
| Scott Emrich (University of Notre Dame, Computer Science and Engineering); |
| Short Abstract: We developed new comparative genomics methods for scaffolding and validation of assemblies from related species. Specifically, we use mate pair information to identify areas where the distances between pairs is inconsistent between two strains. These regions may be involved in ongoing speciation in two related strains of Anopheles gambiae. |
| Long Abstract: Click Here |
| Poster D34 |
| Alternative Splicing in bovine compared to human and mouse |
| Elsa Chacko- Macquarie University |
| Shoba Ranganathan (Macquarie University, Department of Chemistry and Biomolecular Sciences); |
| Short Abstract: We have analysed 3504 (16%), 3835 (15.6%), 3774 (13.04%) of alternatively spliced orthologous genes in bovine, human and mouse respectively. The analysis showed cassette exons to be the most common internal event, intron retention and mutually exclusive exons to be the least encountered internal event in the three transcriptomes. |
| Long Abstract: Click Here |
| Poster D35 |
| Drug target identification using differential genomics |
| Poojitha Rao- sathyabama deemed university |
| Sneha Ravichandran (Sathyabama University, Bioinformatics); |
| Short Abstract: Identifying the drug targets present in human pathogens in order to design new drugs against the pathogens based on the differential genomics approach provided the target is essential for the survival of the pathogen during the infection stage.In this we are considering pathogen Salmonella paratyphi A. |
| Long Abstract: Click Here |
| Poster D36 |
| miRNAminer: a tool for homologous microRNA gene search |
| Adam Kiezun- MIT |
| Shay Artzi (MIT, Computer Science and Artificial Intelligence Laboratory); Noam Shomron (MIT, Department of Biology); |
| Short Abstract: We present miRNAminer, a web-based tool for homologous miRNA search, based on known miRNA characteristics of secondary structure and conservation. miRNAminer uses stringent criteria to increase specificity. miRNAminer identified several hundreds high confidence miRNAs in 7 mammals, increasing the collection of miRbase in these species by more than 50%. http://pag.csail.mit.edu/mirnaminer. |
| Long Abstract: Click Here |
| Poster D37 |
| Interactive manipulation of multi-species alignments on genome-wide scale |
| Anton Nekrutenko- Penn State University |
| Dan Blankenberg (Penn State University, BX); James Taylor (Penn State, BX); Cathy Riemer (Penn State, BX); Nate Coraor (Penn State, BX); Greg Von Kuster (Penn State, BX); |
| Short Abstract: Much valuable biological information has been extracted from genomic sequences by evolutionary biologists, but few experimentalists can easily manipulate multiple genome alignments. We implemented a set of tools to facilitate exploring the full potential of comparative genomic data, including phylogenetic tree manipulation and visualization, and conservation estimates. |
| Long Abstract: Click Here |
| Poster D38 |
| The ABCs of MGR with DCJ |
| Zaky Adam- University of Ottawa |
| David Sankoff (University of Ottawa, Mathematics and Statistics); |
| Short Abstract: We study the small phylogeny problem in the space of multichromosomal genomes under the double cut and join metric. We apply our methods to chloroplast and mammalian data sets. |
| Long Abstract: Click Here |
| Poster D39 |
| Rewiring the sequence similarity network for accurate gene family classification |
| Jacob Joseph- Carnegie Mellon University |
| Dannie Durand (Carnegie Mellon University, Computer Science; Biological Sciences); |
| Short Abstract: We seek automated methods to perform gene family classification. Our method rewires the sequence similarity network to eliminate spurious edges due to domain insertion and add missing edges due to weak homology. This "clumpier" network better resembles the ideal case of families as independent cliques, validated using curated homologous families. |
| Long Abstract: Click Here |
| Poster D40 |
| Regional co-variation among rates of different types of mutations |
| Guruprasad Ananda- Pennsylvania State University |
| Francesca Chiaromonte (Pennsylvania State University, Statistics); Anton Nekrutenko (Pennsylvania State University, Biochemistry and Molecular Biology); Kateryna Makova (Pennsylvania State University, Biology); |
| Short Abstract: We compute substitution rates, insertion and deletion rates and microsatellite mutability in human non-coding regions and investigate their co-variation using multivariate-regression, with mutation rates as responses, and genomic features as predictors. We thus compare the mutation propensities of different genomic regions and use this to improve predictions of functional elements. |
| Long Abstract: Click Here |
| Poster D41 |
| Rearrangement algorithms and the Drosophila neighbouring gene pair database |
| Adriana Muñoz- University of Ottawa |
| David Sankoff (University of Ottawa, Mathematics and Statistics); |
| Short Abstract: We use the double-cut-and-join distance and median algorithms to calculate rearrangement distances among Drosophila genomes and to reconstruct their ancestors, directly from sets of neighbouring gene pairs, by separating virtual ``chromosome fusions" (construction of large contigs from numerous pairs) from true rearrangements. |
| Long Abstract: Click Here |
| Poster D42 |
| Comparative analysis of Non-classically secreted proteins in Botrytis cinerea and symbiotic fungus Laccaria bicolor |
| Preti Jain- University of Alabama in Huntsville |
| Gopi Podila (University of Alabama in Huntsville, Department of Biological Science); Maria Davis (University of Alabama in Huntsville, Department of Biological Science); |
| Short Abstract: Current experimental methods fail to detect low abundant non-classically secreted proteins. We have used computational strategies for a genome wide prediction of non-classically secreted extracellular proteins of selected fungal genomes. Experimental validation of the predicted sequences proves a wide application of this method toward a study of other known genomes. |
| Long Abstract: Click Here |
| Poster D43 |
| EvoPrinterHD: Comparative Genomics Tool for Rapid Detection and Curation of conserved DNA |
| Amarendra Yavatkar- 1. SRA International 2. NINDS/NIH |
| Yong Lin (NINDS/NIH, DIR/ITP); Jermaine Ross (NINDS/NIH, Neural Cell-Fate Determinants Section); Yang Fann (NINDS/NIH, DIR/ITP); Thomas Brody (NINDS/NIH, Neural Cell-Fate Determinants Section); Ward Odenwald (NINDS/NIH, Neural Cell-Fate Determinants Section); |
| Short Abstract: EvoPrinterHD is a web-accessed high-resolution comparative genomics tool that automatically provides an uninterrupted species-centric view of conserved DNA sequences. When combined with cis-Decoder, a program that discovers sequence elements shared among tissue specific enhancers, EvoPrinterHD facilitates the analysis of conserved sequences that are essential for coordinate gene regulation. |
| Long Abstract: Click Here |
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