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genome.umd.edu

UMD Genome group

The University of Maryland Genome Assembly Group. Developing Methods for Improving Genome Assembly. MaSuRCA, Genome assembler. The University of Maryland Assembly Group aims at creating the best possible software for whole genome assembly. We develop the MaSuRCA. Genome assembler. The MaSuRCA genome assembler can be used on assembly projects of all sizes, from bacteria genomes to mammalian genomes to large plant genomes. MaSuRCA has been used to assemble de novo. Our assembly of the Loblolly pine genome.

http://genome.umd.edu/

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UMD Genome group | genome.umd.edu Reviews
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The University of Maryland Genome Assembly Group. Developing Methods for Improving Genome Assembly. MaSuRCA, Genome assembler. The University of Maryland Assembly Group aims at creating the best possible software for whole genome assembly. We develop the MaSuRCA. Genome assembler. The MaSuRCA genome assembler can be used on assembly projects of all sizes, from bacteria genomes to mammalian genomes to large plant genomes. MaSuRCA has been used to assemble de novo. Our assembly of the Loblolly pine genome.
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1 about us
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UMD Genome group | genome.umd.edu Reviews

https://genome.umd.edu

The University of Maryland Genome Assembly Group. Developing Methods for Improving Genome Assembly. MaSuRCA, Genome assembler. The University of Maryland Assembly Group aims at creating the best possible software for whole genome assembly. We develop the MaSuRCA. Genome assembler. The MaSuRCA genome assembler can be used on assembly projects of all sizes, from bacteria genomes to mammalian genomes to large plant genomes. MaSuRCA has been used to assemble de novo. Our assembly of the Loblolly pine genome.

INTERNAL PAGES

genome.umd.edu genome.umd.edu
1

UMD Genome group

http://genome.umd.edu/masurca.html

The University of Maryland Genome Assembly Group. Developing Methods for Improving Genome Assembly. An email was successfully sent. MaSuRCA is whole genome assembly software. It combines the efficiency of the de Bruijn graph and Overlap-Layout-Consensus (OLC) approaches. MaSuRCA can assemble data sets containing only short reads from Illumina sequencing or a mixture of short reads and long reads (Sanger, 454, Pacbio and Nanopore). If you use MaSuRCA in your work, please cite our paper. Joint with USDA-AR...

2

UMD Genome group

http://genome.umd.edu/index.html

The University of Maryland Genome Assembly Group. Developing Methods for Improving Genome Assembly. MaSuRCA, Genome assembler. The University of Maryland Assembly Group aims at creating the best possible software for whole genome assembly. We develop the MaSuRCA. Genome assembler. The MaSuRCA genome assembler can be used on assembly projects of all sizes, from bacteria genomes to mammalian genomes to large plant genomes. MaSuRCA has been used to assemble de novo. Our assembly of the Loblolly pine genome.

3

UMD Genome group

http://genome.umd.edu/quorum.html

The University of Maryland Genome Assembly Group. Developing Methods for Improving Genome Assembly. Newest version released September 19, 2014 is Quorum 1.1.0. QuorUM (Quality Optimized Reads from the University of Maryland) is an error corrector for Illumina reads. It is distributed and used with MaSuRCA. Or it can be used independently. For any questions or comments, contact Guillaume Marçais. Or Aleksey Zimin. The latest release is on github. Quorum is distributed and used in MaSuRCA.

4

UMD Genome group

http://genome.umd.edu/about.html

The University of Maryland Genome Assembly Group. Developing Methods for Improving Genome Assembly. The genome group at the University of Maryland. Is part of the Institute for Physical Science and Technology. We are an interdisciplinary team, developing techniques for higher quality genomes. Our 24Gb genome of Loblolly Pine. Is the largest genome ever assembled. Currently we are assembling a 30 Gb sugar pine genome. Guillaume Marçais, Ph.D. in Applied Mathematics,.

5

UMD Genome group

http://genome.umd.edu/loblolly_pine.html

The University of Maryland Genome Assembly Group. Developing Methods for Improving Genome Assembly. MaSuRCA assembled a 22Gb pine genome. Plant genomes, including conifer trees, are often very large and repetitive, hence difficult to assemble. The loblolly pine ( Pinus taeda. Has a genome of 22Gb, the largest genome ever assembled. The genome group at UMD is part of the Pine Reference Sequence. Group and MaSuRCA assembled. The loblolly pine genome. QuorUM: an error corrector for Illumina reads.

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yorke.umd.edu yorke.umd.edu

CURRICULUM VITAE

http://yorke.umd.edu/CV.htm

JAMES A. YORKE. Distinguished University Professor of Mathematics and. Web page: http:/ yorke.umd.edu. E-mail: yorke at umd.edu. Columbia University A.B. 1963 (math. major). PhD in Mathematics 1966. In the IPST ( IPST denotes the Institute for Physical Science and Technology or in its predecessors, at the University of Maryland). JY has held joint appointments with Mathematics since 1976 and Physics since 2000. Research Associate, 1966-1967. Research Assistant Professor 1967-1969. Distinguished Alumnus A...

ccb.jhu.edu ccb.jhu.edu

Genome Assemblers

http://ccb.jhu.edu/gage_b/genomeAssemblers/index.html

The following genome assemblers were used in GAGE-B:. ABySS v1.3.4. MIRA v3.4.0. MSRCA v1.8.3. SGA v0.9.34. SPAdes v2.3.0. Velvet v1.2.08.

ccb.jhu.edu ccb.jhu.edu

CCB Alumni & Collaborations

http://ccb.jhu.edu/collab.php

CCB Alumni and Collaborations. Rafael Irizarry, Ph.D. JHU Biostatistics (until June 2013). Dana Farber Cancer Institute. Stephan Pabinger, Ph.D. Stephan.pabinger. McKusick-Nathans Institute of Genetic Medicine. Todd J. Treangen, Ph.D. Treangen. National Biodefense Analysis and Countermeasures Center. Johns Hopkins Bloomberg School of Public Health. Alyssa Frazee, Ph. D. 97;lyssa.frazee. Carl Kingsford, Ph.D. Ray and Stephanie Lane Center for Computational Biology. Tanja Magoc, Ph.D. 117;miacs.

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OTHER SITES

genome.ucsc.edu genome.ucsc.edu

UCSC Genome Browser Home

Reset All User Settings. Interactively visualize genomic data. Rapidly align sequences to the genome. Download data from the Genome Browser database. Get functional effect predictions for variant calls. Combine data sources from the Genome Browser database. Find genes that are similar by expression and other metrics. Genome Browser in a Box (GBiB). Run the Genome Browser on your laptop or server. Rapidly align PCR primer pairs to the genome. Convert genome coordinates between assemblies.

genome.ucsd.edu genome.ucsd.edu

Subramaniam Lab

Bioinformatics, Systems Biology, and Systems Medicine. University of California, San Diego. Departments of Bioengineering, Chemistry and Biochemistry, Cellular and Molecular Medicine, and Nano Engineering. 9500 Gilman Drive #0412, La Jolla, CA 92093. Subramaniam Asst: 858.822.3228. Lab: 858.822.0960.

genome.ucsf.edu genome.ucsf.edu

The Li Lab at UCSF

Welcome to the Li Lab! Our lab is in the Department of Biochemistry and Biophysics at UCSF. We are a member of the California Institute for Quantitative Biosciences. We are also a part of the UCSF Center for Systems and Synthetic Biology. One of the NIGMS-funded National Centers for Systems Biology.

genome.ugr.es genome.ugr.es

University of Granada - Genome web server

If you have any comments or suggestions, contact us at. Cnluzon at decsai.ugr.es. If you use , please cite the publication:. ProphNet server seems to be down. It should automatically be up in an hour. If this situation continues, please contact fvictor at correo.ugr.es. Sorry for the inconvenience! 2016 DECSAI. University of Granada. Below you can see a selection of tools we have developed. Look at the tools. Section for a more detailed list. Allows to perform a. Blind search of CRMs. Given a set of dise...

genome.uiowa.edu genome.uiowa.edu

Home page | Center for Bioinformatics and Computational Biology

Pathways and Systems Biology. Disease, Drugs and Therapies. State of the art practice of bioinformatics involves collection, QC, analysis, archive and searching of molecular and clinical data. The CBCB has extensive data storage and processing capabilities, as well as a wealth of installed and maintained software analysis tools to enable research and experiment execution at the leading edge of modern biomedical research. Pathways and Systems Biology. Disease, Drugs, Therapies. Tuesday, July 15, 2014.

genome.umd.edu genome.umd.edu

UMD Genome group

The University of Maryland Genome Assembly Group. Developing Methods for Improving Genome Assembly. MaSuRCA, Genome assembler. The University of Maryland Assembly Group aims at creating the best possible software for whole genome assembly. We develop the MaSuRCA. Genome assembler. The MaSuRCA genome assembler can be used on assembly projects of all sizes, from bacteria genomes to mammalian genomes to large plant genomes. MaSuRCA has been used to assemble de novo. Our assembly of the Loblolly pine genome.

genome.unc.edu genome.unc.edu

UNC MicroArray Database

If you have further questions regarding access, please e-mail the UNC-Chapel Hill Microarray Database curators at: UNC MD curators. For list of publications and software programs visit the Bioinformatics Core website.

genome.unige.ch genome.unige.ch

Génome - Génome - Voyage au cœur du vivant - UNIGE

Génome - Présentation de l'exposition. L’exposition Génome - voyage au cœur du vivant, qui a été onçue par les généticiens de l’UNIGE et le scénographe François Confino, a élu domicile au Centre médical universitaire (CMU) en 2011 et reprend le contenu du noyau géant qui a occupé l’île Rousseau durant quatre mois et demi à l’occasion du 450e anniversaire de l’Université. Génome - voyage au cœur du vivant. CMU, 3e étage, bâtiment B. 9 avenue de Champel/1 rue michel-Servet. Université de Genève 29 juin 2017.

genome.utah.edu genome.utah.edu

Utah Genome Depot

Sponsored by the National Institute of Environmental Health Sciences. This Environmental Genome Project. Resource integrates gene,sequence and polymorphism data into individually annotated genemodels.The human genes included are related to DNA repair, cell cycle control, cellsignaling, cell division, homeostasis and metabolism, and are thought to play a role in susceptibility to environmental exposure. Update (04-25-08): New GeneSNPs Version. DMD Testing now available. At the Human Genetics Department.

genome.uwencode.org genome.uwencode.org

UCSC Genome Browser Home

About the UCSC Genome Bioinformatics Site. Welcome to the UCSC Genome Browser website. This site contains the reference sequence and working draft assemblies for a large collection of genomes. It also provides portals to ENCODE. Data at UCSC (2003 to 2012) and to the Neandertal. Project. Download or purchase the Genome Browser source code, or the Genome Browser in a Box ( GBiB. At our online store. We encourage you to explore these sequences with our tools. The Genome Browser. The Genome Browser project ...

genome.wisc.edu genome.wisc.edu

E. coli Genome Project

We sequenced the E. coli. K-12 genome, and continue to maintain and update its annotation. We created knockouts of many genes, archive clones of many ORFs, and an extensive gene expression data set under a variety of physiological conditions. These data sets are made available freely to the community. We also sequenced six additional enterobacterial strains which are pathogens related to E. coli. CEL files) for several publications now available for download. Now hosting Supplementary Online Material.