'Gene models' presentation slideshows

Evaluating genes and transcripts in Ensembl

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Bacterial genome annotation in the AGC group

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GMOD/GBrowse_syn

GMOD/GBrowse_syn. Sheldon McKay iPlant Collaborative DNA Learning Center Cold Spring Harbor Laboratory. Outline. A few words on whole genome alignment A brief survey of synteny browsers A few challenges of rendering comparative data Comparative genome browsing with GBrowse_syn .

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Genome Sequencing and genome viewers

Genome Sequencing and genome viewers. 6/10/ 2014. Lecture outline . Overview of genome sizes and organization Overview of sequencing a genome Next generation sequencing High-throughput experiments by sequencing Genome browsers. Genome sizes. Genome sequencing.

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Chinnappa Kodira April 2004 GMOD 2004, Cambridge, MA

Manual Annotation of Human Genome at Broad Institute. Chinnappa Kodira April 2004 GMOD 2004, Cambridge, MA. Goals. Accurate and comprehensive catalog of genes and gene products Robust annotation system for annotation of all sequenced genomes.

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Genomics of Microbial Eukaryotes

Genomics of Microbial Eukaryotes. Igor Grigoriev Fungal Genomics Program Head US DOE Joint Genome Institute, Walnut Creek, CA <ivgrigoriev@lbl.gov>. Outline. Eukaryotic Genome Annotation Fungal Genomics Program MycoCosm. Are you in the right room?. IMG. MycoCosm.

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The Laccaria transcriptome: ESTs and Microarrays

The Laccaria transcriptome: ESTs and Microarrays. EST resources Nylon array NimbleGen genome expression array Symbion Chip (JGI). cDNA libraries. CAHB, CAHC, CAHF,CAHG, cDNA libraries from mixed tissues (JGI) CAHH, CAPI,CAPN (mainly mycelium) 30826 ESTs LU ? 165 ESTs

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Part I: Tips and Techniques from curators

Part I: Tips and Techniques from curators. GBrowse at TAIR David Swarbreck. TAIR9 Genome Release. TAIR9 - Sources of data. New cDNA/EST data, x-species alignments Updates from proteome data Baerenfaller et al., 2008 and Castellana et al., 2008 Analysis of pseudopipe annotations

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Muscle development model

Muscle development model Mouse myoblast (muscle) cell line C2C12 induced to undergo myogenic differentiation. mRNA was isolated at : -24 hours, 60 hours, 120 hours, and 168 hours. Size selected fragments of approximately 200nt long for all of the time-points.

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Use cases for Tools at the Bovine Genome Database

Use cases for Tools at the Bovine Genome Database. Apollo and Bovine QTL viewer. Apollo: Creating and editing annotations.

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Proc. Natl. Acad. Sci. USA 105: 21034-21038 (2008) .

Proc. Natl. Acad. Sci. USA 105: 21034-21038 (2008) .

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Gene annotation: Metal transport & homeostasis Damien BLAUDEZ Annick BRUN Michel CHALOT

Gene annotation: Metal transport & homeostasis Damien BLAUDEZ Annick BRUN Michel CHALOT Barbara MONTANINI. UMR 1136 Interactions Arbres-Microorganismes. Metal transport & homeostasis in ECM fungi Why ?. At low metal concentrations: Tree nutrition is improved

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Codon usage and gene finding with AMIGene

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Annotation and Visualization

Annotation and Visualization. Doreen Ware. Project Challenges. Rapidly growing sequence data Full annotation of all clones New high-performance computing cluster 2,000 nodes Scheduling system (SunGrid Engine) NFS issues EnsEMBL Code Integration. Milestones.

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Introduction Ordering of P . knowlesi contigs v P . falciparum methodology progress/status

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GUS Overview

GUS Overview. June 18, 2002. GUS-3.0. Genomics Unified Schema. Supports application and data integration Uses an extensible architecture. Is object-oriented even though it uses an underlying relational database management system (Oracle).

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Improving our understanding of Aspergillus fumigatus

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Figure S1

Figure S1. Figure S2 (a). Figure S2 (b). Figure S2 (c). Figure S2 (d). Figure S2 (e). Figure S2 (f). Figure S2 (g). Figure S2 (h). (b). (a). (c). Figure S3. Figure S4. Figure S5 (a). Figure S5 (b). Additional Figure Legends Figure S1. Pre-computed annotation tracks in Rice-Map.

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What are we doing?

What are we doing? In this activity you and your group will play the role of a 2 parents. You will work in groups of six. 3 students will play the mother 3 students will play the father

248 views • 11 slides