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The Laboratory of Eric Lyons - Home

Through years of hard, dedicated work, Eric has built the greatest team in the history of science and software development. Meet them here.

http://www.lyonslab.net/

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The Laboratory of Eric Lyons - Home | lyonslab.net Reviews

https://lyonslab.net

Through years of hard, dedicated work, Eric has built the greatest team in the history of science and software development. Meet them here.

INTERNAL PAGES

lyonslab.net lyonslab.net
1

collaborators - The Laboratory of Eric Lyons

http://www.lyonslab.net/our-collaborators.html

Michael S. Barker. Mark Beilstein, PhD. Fiona McCarthy, PhD. Duke University Medical Center. Missing from this page? Contact Asher ahaug (at) email.arizona.edu.

2

What we Do - The Laboratory of Eric Lyons

http://www.lyonslab.net/what-we-do.html

We are involved in many projects. CoGe: Comparative Genomics Engine. CyVerse: Transforming Science through Data-Driven Discovery. Structural, functional, and evolutionary analysis of long non-coding RNAs in control of stress response and the epigenome in diverse plant species. We do fun things on the side. Genomic Data Visualization with Virtual Reality. Raspberry Pi and Arduino's for Biologists. And sometimes, pinball. We are always open to new ideas.

3

Who we Are - The Laboratory of Eric Lyons

http://www.lyonslab.net/who-we-are.html

Eric Lyons, Ph.D. Eric Lyons, PhD,. Graduated from Arizona State University with a degree in Computer Systems Engineering. For the last nine years he has worked as a Bioinformatics Software Engineer at the University of Arizona. He enjoys all aspects of scientific software development, from building analytical pipelines to user interfaces. He finds CoGe a particularly exciting project to work on because of its wide use and innovative tools. Andreina Siri, Ph.D. 8203; Andreina Castillo Siri. On Evolutiona...

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LINKS TO THIS WEBSITE

genomevolution.org genomevolution.org

CoGe: OrganismView

https://www.genomevolution.org/coge/OrganismView.pl?org_name=W3110

Would you like to log out of all CyVerse applications? Log out of CoGe only. Log out of all CyVerse services. Contact or Cite Us. Escherichia coli K12 strain K-12 substrain W3110 (id24291). Escherichia coli strain K-12 substrain W3110 (id36126). Escherichia coli K12 strain K-12 substrain W3110. Escherichia coli K12 strain K-12 substrain W3110 (v1, id4243): unmasked. Unmasked: unmasked sequence data (gstid1). 4,646,332 bp. AC 000091.gbk(v1, id36726). NCBI: National Center for Biotechnology Information.

genomevolution.org genomevolution.org

CoGe: SynFind

https://www.genomevolution.org/coge/SynFind.pl?dsgid=3068;fid=40603528;run=1

Would you like to log out of all CyVerse applications? Log out of CoGe only. Log out of all CyVerse services. Contact or Cite Us. Identifies syntenic regions against any set of genomes given a gene in one genome. More. Complete syntenic gene-sets can be downloaded, and syntenic depth tables are generated to access the polyploidy level between the query genome and each target genome. Please enter a search term. Hold down SHIFT or CTRL key to select multiple items. Minimum number of genes:.

genomevolution.org genomevolution.org

CoGe: SynFind

https://www.genomevolution.org/coge/SynFind.pl

Would you like to log out of all CyVerse applications? Log out of CoGe only. Log out of all CyVerse services. Contact or Cite Us. Identifies syntenic regions against any set of genomes given a gene in one genome. More. Complete syntenic gene-sets can be downloaded, and syntenic depth tables are generated to access the polyploidy level between the query genome and each target genome. Please enter a search term. Hold down SHIFT or CTRL key to select multiple items. Minimum number of genes:.

genomevolution.org genomevolution.org

CoGe: My Data

https://www.genomevolution.org/coge/User.pl?p=analyses

Would you like to log out of all CyVerse applications? Log out of CoGe only. Log out of all CyVerse services. Contact or Cite Us. This page requires that you be logged-in. If you have a CyVerse account you can login here. Otherwise, please see these instructions. For getting an account. Questions, problems, suggestions?

genomevolution.org genomevolution.org

CoGe: BLAST

https://www.genomevolution.org/coge/CoGeBlast.pl?dsgid=3068;fid=40603528

Would you like to log out of all CyVerse applications? Log out of CoGe only. Log out of all CyVerse services. Contact or Cite Us. Provides an interface to blast any genome within CoGe and view tabular and graphical results. More. Find and select any number of organisms and genomes to search against. Configure the analysis parameters. Click the Run CoGe BLAST. Button to start the analysis. Visualize an overview of blast hits (High-scoring Sequence Pairs; HSP) in relationship to their genomic locations.

genomevolution.org genomevolution.org

CoGe: OrganismView

https://www.genomevolution.org/coge/OrganismView.pl

Would you like to log out of all CyVerse applications? Log out of CoGe only. Log out of all CyVerse services. Contact or Cite Us. Do not generate features for ncRNA genes (CDS genes only). Include feature annotations (descriptive text; Geneontology; etc). Ensure that GFF Name tag is unique for each feature. Do not propagate duplicate annotations to children. For GFF "ID" and "Parent" tags, use unique:. Questions, problems, suggestions?

genomevolution.org genomevolution.org

CoGe: GEvo

https://www.genomevolution.org/coge/GEvo.pl?prog=blastz;accn1=at1g07300;fid1=4091274;dsid1=556;chr1=1;dr1up=20000;dr1down=20000;gbstart1=1;gblength1=772;accn2=at2g29640;fid2=4113333;dsid2=557;chr2=2;dr2up=20000;dr2down=20000;gbstart2=1;rev2=1;num_seqs=2;autogo=1

Would you like to log out of all CyVerse applications? Log out of CoGe only. Log out of all CyVerse services. Contact or Cite Us. A genome or dataset was omitted because you lack access to it or it has been marked deleted. Merge Previous GEvo Analysis (paste in URL):. Change order by dragging boxes. Paste fasta or genbank format sequence below:. Paste fasta or genbank format sequence below:. Open all sequence option menus. Close all sequence option menus. Walk all sequences left. Walk all sequences right.

genomevolution.org genomevolution.org

CoGe: BLAST

https://www.genomevolution.org/coge/CoGeBlast.pl

Would you like to log out of all CyVerse applications? Log out of CoGe only. Log out of all CyVerse services. Contact or Cite Us. Provides an interface to blast any genome within CoGe and view tabular and graphical results. More. Find and select any number of organisms and genomes to search against. Configure the analysis parameters. Click the Run CoGe BLAST. Button to start the analysis. Visualize an overview of blast hits (High-scoring Sequence Pairs; HSP) in relationship to their genomic locations.

genomevolution.org genomevolution.org

CoGe: My Data

https://www.genomevolution.org/coge/User.pl

Would you like to log out of all CyVerse applications? Log out of CoGe only. Log out of all CyVerse services. Contact or Cite Us. This page requires that you be logged-in. If you have a CyVerse account you can login here. Otherwise, please see these instructions. For getting an account. Questions, problems, suggestions?

genomevolution.org genomevolution.org

CoGe: FeatView

https://www.genomevolution.org/coge/FeatView.pl

Would you like to log out of all CyVerse applications? Log out of CoGe only. Log out of all CyVerse services. Contact or Cite Us. Non canonical five prime splice site. Non canonical three prime splice site. Rep EST predicted CDS. Rep EST predicted mRNA. Stop codon read through. Stop codon redefined as selenocysteine. Terminal inverted repeat element. Questions, problems, suggestions?

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The Laboratory of Eric Lyons - Home

Through years of hard, dedicated work, Eric has built the greatest team in the history of science and software development. Meet them here. Learn about the kinds of things we are involved in here. Also, see some interesting papers and resources that have come from the lab. Interested in learning more? Maybe you would like to join the team? Maybe you have some other question or concern that you think we can help with. Contact us here.

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