compbio.berkeley.edu

Brenner Laboratory: Computational Genomics Research Group

Computational Genomics Research Group. University of California, Berkeley. PI: Steven E. Brenner. Paper published: Tavtigian SV, Greenblatt MS, Harrison SM, Nussbaum RL, Prabhu SA, Boucher KM, Biesecker LG, on behalf of the ClinGen Sequence Variant Interpretation Task Team (ClinGen SVI). Modeling the ACMG/AMP Variant Classification Guidelines as a Bayesian Classification Framework. Doi:10.1038/gim.2017.210. 39(3):454-458. PMID:29282786. PMCID:5805595 doi:10.1002/humu.23393. Was published, including the f...

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Brenner Laboratory: Computational Genomics Research Group | compbio.berkeley.edu Reviews

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Computational Genomics Research Group. University of California, Berkeley. PI: Steven E. Brenner. Paper published: Tavtigian SV, Greenblatt MS, Harrison SM, Nussbaum RL, Prabhu SA, Boucher KM, Biesecker LG, on behalf of the ClinGen Sequence Variant Interpretation Task Team (ClinGen SVI). Modeling the ACMG/AMP Variant Classification Guidelines as a Bayesian Classification Framework. Doi:10.1038/gim.2017.210. 39(3):454-458. PMID:29282786. PMCID:5805595 doi:10.1002/humu.23393. Was published, including the f...

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2 genetics in medicine

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4 human mutation

5 cagi special issue

6 of human mutation

7 press release

8 ncbi genome sequences

9 perspective piece

10 older news

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news,genetics in medicine,in press,human mutation,cagi special issue,of human mutation,press release,ncbi genome sequences,perspective piece,older news,full publications list,google scholar,myncbi,researcherid,introduction,individual genome interpretation

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Brenner Laboratory: Computational Genomics Research Group | compbio.berkeley.edu Reviews

https://compbio.berkeley.edu

Computational Genomics Research Group. University of California, Berkeley. PI: Steven E. Brenner. Paper published: Tavtigian SV, Greenblatt MS, Harrison SM, Nussbaum RL, Prabhu SA, Boucher KM, Biesecker LG, on behalf of the ClinGen Sequence Variant Interpretation Task Team (ClinGen SVI). Modeling the ACMG/AMP Variant Classification Guidelines as a Bayesian Classification Framework. Doi:10.1038/gim.2017.210. 39(3):454-458. PMID:29282786. PMCID:5805595 doi:10.1002/humu.23393. Was published, including the f...

INTERNAL PAGES

compbio.berkeley.edu

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ANDY

http://compbio.berkeley.edu/proj/andy

ANDY: A general, fault-tolerant tool for database searching on computer clusters. And we are making it publicly available. For questions, comments, bug reports, feature requests, etc. concerning ANDY or this site email us.

2

doublet

http://compbio.berkeley.edu/proj/doublet

Is a modified version of the Smith-Waterman algorithm that incorporates patterns of dipeptide covariation to align protein sequences. Manuscript [ pdf 0.4Mb. Alignment algorithm, the derivation of dipeptide substitution matrices, and results of testing doublet. Versus standard Smith-Waterman in remote homolog detection. Is distributed under the MIT Open Source License. Described in Price et al., 2005, Statistical evaluation of pairwise protein sequence comparison with the Bayesian bootstrap.

3

Genome Leaks commentary

http://compbio.berkeley.edu/proj/leak

Annotated version of the Genome Leaks paper (Brenner SE, 2013), with commentary: [ PDF 1M. The process below was necessary to generate the annotated version of this paper during the first 6 months after publication due to the licensing rules for that paper. These instructions and commentary refer to Brenner SE. 2013. Be prepared for the big genome leak. Nature 498. 139 doi: 10.1038/498139a. Key documents: overlay.pdf. How to construct your own personal annotated version of the Genome Leaks text. You can ...

4

Mohammad Sahraeian | University of California, Berkeley

http://compbio.berkeley.edu/people/mohammad

Computational Genomics Research Group UC Berkeley. Sayed Mohammad Ebrahim Sahraeian. Computational Genomics Research Group. Berkeley, CA 94720-3102. Mohammad [at] compbio [dot] berkeley [dot] edu. I am a postdoctoral researcher in Steven E. Brenner. S, computational genomics group. Working on automated protein function prediction. Before coming to Berkeley, I completed my PhD in 2013 in the Department of Electrical and Computer Engineering. At Texas A&M University. Automated Protein Function Prediction.

5

Steven E. Brenner

http://compbio.berkeley.edu/people/brenner

Brenner Computational Genomics Research Group. Steven E. Brenner. Professor, Department of Plant and Microbial Biology. University of California, Berkeley. Adjunct Professor, Department of Bioengineering and Therapeutic Sciences. University of California, San Francisco. Faculty Scientist, Physical Biosciences. Lawrence Berkeley National Laboratory. Affiliated Professor, Department of Molecular and Cell Biology. Affiliated Professor, Department of Bioengineering. Member, Center for Computational Biology.

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strgen.org

JMC's Research Page

http://www.strgen.org/~jmc

This is John-Marc Chandonia's research page. You can also visit my home page. Looking for something else? My main project is ENIGMA. Formerly Protein Complex Analysis Project. At Berkeley National Lab. I also lead development of the SCOPe. Databases, and contribute some work to KBase. I work closely with the Arkin Lab. I previously worked as a postdoc in the Cohen Group. At UCSF, and did my graduate studies with Martin Karplus. Structural Genomics, particularly target selection strategy. Testing the pote...

weblogo.threeplusone.com

WebLogo 3 - User's Manual

http://weblogo.threeplusone.com/manual.html

WebLogo 3: User's Manual. Creating Sequences Logos using the Web interface. Downloading and Installing WebLogo. Command Line Interface (CLI). Application Programmer Interface (API). Development and Future Features. Release Notes and Known Bugs. The WebLogo release notes. Detail changes to WebLogo and known issues with particular versions. Is a web based application designed to make the generation. Of sequence logos as easy and painless as possible. WebLogo: A sequence logo generator,. The physical dimens...

lareaulab.org

Liana F Lareau

http://www.lareaulab.org/lareau.html

I am excited to be back at UC Berkeley as a distinguished research fellow of the California Institute for Quantitative Biosciences (QB3). If you are interested in working or collaborating with me please do get in touch. I was a postdoctoral fellow in Pat Brown. S research group in the Biochemistry. Department at Stanford University, supported by a fellowship from the Damon Runyon Cancer Research Foundation. The guy who brought you the Neanderthal genome sequence, in the Paleogenomics Lab.

coffyybioinformatics.blogspot.com

Bioinformatics - Miscellaneous collection | Bioinformatics

http://coffyybioinformatics.blogspot.com/p/bioinformatics-miscellaneous-collection.html

Where is bioinformatics done? What bioinformatics Websites are there? Where can I study Bioinformatics. List of grad schools. Bioinformatics - Miscellaneous collection. Follow us on Facebook. View my complete profile. Bioinformatics - Miscellaneous collection. Bioinformatics - Miscellaneous collection. Recent U.S. patents related to. 6,369,295: Uses of transgenic mouse containing a type X collagen mutant. 6,368,840: Acyl-CoA oxidase homologues. 6,365,389: Human protein kinase H2LAU20. 6,365,387: fabG.

open-bio.org

Board - Open Bioinformatics Foundation

http://www.open-bio.org/wiki/Board

From Open Bioinformatics Foundation. Board of Directors Meetings. The board can be contacted via email at board@open-bio.org. Director of Informatics at the Center for Genomic and Computational Biology. GCB) at Duke University. Former OBF Parliamentarian, and currently acting Treasurer. Core developer, bioinformatician at the James Hutton Institute. Project Manager at the Lawrence Berkeley National Laboratory. BOSC 2016. Core developer, researcher fellow at the Institute for Genomic Biology. According to...

csb.stanford.edu

Levitt Lab Server | Computational Structural Biology

http://csb.stanford.edu/members.html

Steven E. Brenner. Enoch S. Huang. 169 Dahlia Weiss 2006.

bioinformatics.berkeley.edu

ANDY

http://bioinformatics.berkeley.edu/proj/andy

ANDY: A general, fault-tolerant tool for database searching on computer clusters. And we are making it publicly available. For questions, comments, bug reports, feature requests, etc. concerning ANDY or this site email us.

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We are a group of researchers working in different scientific institutions. In Dresden, Germany, interested in developing and applying computational and mathematical approaches to solve significant problems in biology and biomedicine. Our research interests comprise a broad spectrum covering Bioinformatics, Systems Biology, Bioimage Informatics, Computational and Evolutionary Genomics, Modelling and Simulating Biological Systems, Engineering, and the Analysis of Regulatory Networks. To learn more...Dresd...

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Welcome! | Shah Lab for Computational Cancer Biology

Shah Lab for Computational Cancer Biology. Bioinformatics for Cancer Genomics. DeFuse: gene fusion discovery using RNA-Seq. Our group focuses on research in computational biology and cancer genomics at the BC Cancer Agency. If you are interested in pursuing graduate or postdoctoral training in the Shah Lab, please send a CV and cover letter to CareersMolOnc [at] bccrc [dot] ca. Department of Breast and Molecular Oncology. BC Cancer Agency Research Centre. 675 West 10th Avenue.

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Brenner Laboratory: Computational Genomics Research Group

Computational Genomics Research Group. University of California, Berkeley. PI: Steven E. Brenner. Paper published: Tavtigian SV, Greenblatt MS, Harrison SM, Nussbaum RL, Prabhu SA, Boucher KM, Biesecker LG, on behalf of the ClinGen Sequence Variant Interpretation Task Team (ClinGen SVI). Modeling the ACMG/AMP Variant Classification Guidelines as a Bayesian Classification Framework. Doi:10.1038/gim.2017.210. 39(3):454-458. PMID:29282786. PMCID:5805595 doi:10.1002/humu.23393. Was published, including the f...

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Ma Lab :: University of Illinois at Urbana-Champaign

Computational Comparative Genomics Lab. UNIVERSITY OF ILLINOIS AT URBANA-CHAMPAIGN. Welcome to the Computational Comparative Genomics Lab led by Jian Ma. In the Department of Bioengineering. And the Carl R. Woese Institute for Genomic Biology. At the University of Illinois at Urbana-Champaign. Yang Li received "Chinese Government Award for Outstanding Self-financed Students Abroad". Jian was selected as a CAS Fellow. We received an R01 grant from NIH. Brittany has been selected as an M-CNTC. We received ...

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Molecular Dynamics Group - The University of Queensland, Australia

The University of Queensland. Welcome to the Molecular Dynamics Group. We are located in the Molecular Biosciences Building (#76) at the University of Queensland, St Lucia campus, Brisbane. The head of the Molecular Dynamics (MD) group is Professor Alan E. Mark. UQ MD Group Wiki. This page was last updated on July the 10. Enquiries about this Website. The University of Queensland. 61 7 3365 1111. 2017 The University of Queensland. Privacy and Terms of use. Authorised by: Director of OMC.

compbio.brc.iop.kcl.ac.uk

NIHR Biomedical Research Centre for Mental Health: Computational Biology

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Computational Biology and Bioinformatics Website - Computational Biology Group

Linux Tips and Tricks. 62; Computational Biology and Bioinformatics Website. The CBB group at the Institute for Medical Genetics and Human Genetics. We are a multidisciplinary team. Of computer scientists, bioinformaticians, biologists, and MDs. Article on NGS profiling of T cell receptor repertoires published in Bioinformatics. Article on a gold-standard corpus of HPO-annotations in abstracts published in Database. I t is open access.