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SBGrid - Software Consortium for Structural Biology

SBGrid In Your Lab. Jalview Developer Geoff Barton's desk with the JalviewAbacus (right) and displayed a dendrogram (tree) for the set of sequences shown in the alignment, using Jalview linked to Chimera. Read the full story here. From Michael Sattler's group: the ternary complex involving the tandem RNA recognition motif domains of Sxl, a cold-shock domain of the protein Unr bound to a specific RNA sequence motif. Read the details. And read more in eLIFE. Featuring Bob Langridge and Tom Ferrin. A graphi...

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SBGrid - Software Consortium for Structural Biology | sbgrid.org Reviews

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SBGrid In Your Lab. Jalview Developer Geoff Barton's desk with the JalviewAbacus (right) and displayed a dendrogram (tree) for the set of sequences shown in the alignment, using Jalview linked to Chimera. Read the full story here. From Michael Sattler's group: the ternary complex involving the tandem RNA recognition motif domains of Sxl, a cold-shock domain of the protein Unr bound to a specific RNA sequence motif. Read the details. And read more in eLIFE. Featuring Bob Langridge and Tom Ferrin. A graphi...

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SBGrid - Software Consortium for Structural Biology | sbgrid.org Reviews

https://sbgrid.org

SBGrid In Your Lab. Jalview Developer Geoff Barton's desk with the JalviewAbacus (right) and displayed a dendrogram (tree) for the set of sequences shown in the alignment, using Jalview linked to Chimera. Read the full story here. From Michael Sattler's group: the ternary complex involving the tandem RNA recognition motif domains of Sxl, a cold-shock domain of the protein Unr bound to a specific RNA sequence motif. Read the details. And read more in eLIFE. Featuring Bob Langridge and Tom Ferrin. A graphi...

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portal.sbgrid.org

SBGrid Home

Wide Search Molecular Replacement. WSMR searches up to 100,000 domains for molecular replacement models given X-ray structure factors. DEN produces high resolution structures from low resolution X-Ray data by only refining known restraints and the use of homology models. SBGrid provides a distribution of over 200 scientific software packages with monthly updates to member labs. Visit the Consortium website. Of software distribution and scientific computing technical support. Assistance commissioning grid...

ganglia.sbgrid.org

Ganglia:: Workstations Grid Report

Workstations Grid Report for Thu, 12 Jan 2017 19:06:36 -0500. Workstations Grid (0 sources). Avg Load (15, 5, 1m):. Snapshot of the Workstations Grid Legend. Ganglia Web Frontend version 3.1.2 Check for Updates. Ganglia Web Backend (gmetad). Version 3.7.2 Check for Updates. Downloading and parsing ganglia's XML tree took 0.0005s. Images created with RRDTool. Version 1.3.8. Pages generated using TemplatePower. Version 3.0.1.

data.sbgrid.org

SBGrid Data Bank

Get Help ▼. For Depositors ▼. The SBGrid Data Bank. We support publication of X-ray diffraction, MicroED, LLSM datasets, as well as structural models. All visitors can access our Laboratory and Institutional Collections. All structural biologists are invited to deposit datasets. Share your data with the community. Every dataset deposited with SBDB receives a unique DOI and its own landing page here. Browse all published datasets and download via rsync. Washington U. School of Medicine.

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sbgrid.org

1

SBGrid Consortium - Developer Tale - Geoff Barton - Division of Computational Biology, University of Dundee

https://www.sbgrid.org/software/tale/ingo_alignment

SBGrid In Your Lab. Division of Computational Biology, University of Dundee. Published May 27, 2015. A page from Barton's lab book in around 1988. It shows a multiple sequence alignment produced automatically by his alignment softw strong text. Barton laughs about this now, be that experience taught him important lessons about the development of software for science. Make it easy to use, he says. And give it away for free. Barton calls Jalview net centric because, in a later version, his team added integ...

2

Portal Applications

https://www.sbgrid.org/computing/portal

SBGrid In Your Lab. Wide Research Molecular Replacement. Wide Research Molecular Replacement (WSMR) performs a molecular replacement search with the application Phaser against approximately 100,000 SCOP domains. The search results are presented in the form of an LLG/TFZ graph and computations usually converge within 4-14 days. Before you submit your computations you will need to create an SBGrid portal account (request an account here. SBGrid In Your Lab.

3

SBGrid Consortium - Supported Applications

https://www.sbgrid.org/software

SBGrid In Your Lab. Structure Visualization and Analysis. Structure Visualization and Analysis. No programs selected How to use AppCiter? How to use AppCiter? AppCiter will help you create a bibliography of the programs you wish to cite. 1 Choose Your Programs. Button in the Name column to choose your programs. Proceed to Step 2 to view available citations. Select citations from a custom list. Proceed to Step 3 to download. Export citations or send them to your email. Continue to Step 2. The structure-so...

4

SBGrid Consortium - Member Tale - Georgios Skiniotis - University of Michigan Life Sciences Institute

https://www.sbgrid.org/members/tale/picture_this

SBGrid In Your Lab. University of Michigan Life Sciences Institute. Published March 20, 2015. A graphic illustration of the PikAIII polyketide synthase module showing the. Acyl Lcarrier protein in different positions as determined by cryo-EM. As a graduate student at the European Molecular Biology Lab in Heidelberg he used cryo-EM to study kinesin motors, capturing snapshots that show how kinesin walks along a microtubule. Later, as a postdoc in the lab of Tom Walz at Harvard Medical School, Skinioti...

5

SBGrid Consortium - Member Tale - Pedro José Barbosa Pereira - Institute for Molecular and Cell Biology, Portugal

https://www.sbgrid.org/members/tale/bloodletting-and-other-studies

SBGrid In Your Lab. Pedro José Barbosa Pereira. Bloodletting and Other Studies. Pedro José Barbosa Pereira. Institute for Molecular and Cell Biology, Portugal. Published November 25, 2014. When searching for a graduate program, Pedro José Barbosa Pereira was drawn to the lab of Nobel Laureate Robert Huber at the Max Planck Institute of Biochemistry in Munich for obvious reasons. But it was the leeches that made him stay. Pereira and collaborators at Max Planck began the work of designing drugs to modulat...

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data.sbgrid.org

SBDB 412

https://data.sbgrid.org/dataset/412

Get Help ▼. For Depositors ▼. X-Ray Diffraction data from RctB-1-124, source of 5UBE structure. Data DOI: 10.15785/SBGRID/412. Publication DOI: 10.1093/nar/gkw1288. City College of New York. Release Date: Jan. 6, 2017. 1 If this dataset is locally available, it should be accessable at. 2 To download this dataset, please run the following command from your Terminal on a Linux or OS X workstation:. Rsync -av rsync:/ data.sbgrid.org/10.15785/SBGRID/412 .'. Harvard Medical School, USA). July 8, 2014. Program...

data.sbgrid.org

SBGrid Data Bank

https://data.sbgrid.org/static/html/apidoc/index.html

Get Help ▼. For Depositors ▼. There are several API endpoints available for querying the SBDG. This API is in development, and so it may change - and if you have suggestions (or are interested in an API we don't currently provide), please feel free to let us know at data@sbgrid.org. Return lists of datasets matching specified criteria. Returns: JSON-encoded list of numeric dataset identifiers. List datasets of particular type. Plus-encoded and currently case-sensitive. Results are for datasets. Values fo...

data.sbgrid.org

SBDB 415

https://data.sbgrid.org/dataset/415

Get Help ▼. For Depositors ▼. X-Ray Diffraction data from TREM2 ectodomain, source of 5ELI structure. Data DOI: 10.15785/SBGRID/415. Publication DOI: 10.7554/eLife.20391. Washington U. School of Medicine. Release Date: Jan. 6, 2017. 1 If this dataset is locally available, it should be accessable at. 2 To download this dataset, please run the following command from your Terminal on a Linux or OS X workstation:. Rsync -av rsync:/ data.sbgrid.org/10.15785/SBGRID/415 .'. Harvard Medical School, USA). Program...

data.sbgrid.org

SBGrid Data Bank

https://data.sbgrid.org/cr/make_req

Get Help ▼. For Depositors ▼. This form is for requesting a username/password to register datasets for depostion. This is a request from a new lab or group:. Leave this field blank to prove your humanity. Supported by a grant from the Leona M. and Harry B. Helmsley Charitable Trust.

data.sbgrid.org

SBGrid Data Bank

https://data.sbgrid.org/help/download

Get Help ▼. For Depositors ▼. All published datasets are available for download via rsync. Datasets available at your local institution should be accessable at /programs/datagrid/ $dataset number. Run the following command from your Terminal on a Linux or OS X workstation:. Rsync -av rsync:/ data.sbgrid.org. Faster access may be available from a Tier 1 site closer to your location. Substitute any of the following for the domain in the rsync command above. Sbgrid.icm.uu.se. Uppsala University in Sweden).

data.sbgrid.org

SBGrid Data Bank

https://data.sbgrid.org/data/datasets/llsm

Get Help ▼. For Depositors ▼. Lattice Light-Sheet Microscopy data from Developing Zebrafish Embryo. Data DOI: 10.15785/SBGRID/187. Published: Oct. 16, 2015. Data DOI: 10.15785/SBGRID/187. Supported by a grant from the Leona M. and Harry B. Helmsley Charitable Trust.

data.sbgrid.org

SBGrid Data Bank

https://data.sbgrid.org/who_we_are

Get Help ▼. For Depositors ▼. The SBGrid Data Bank has been established in close collaboration between SBGrid and the Dataverse Project. Supported by the Leona M. and Harry B. Helmsley Charitable Trust the joint initiative combines long-standing expertise in data preservation with dedication to providing revolutionary solutions for the scientific community. Piotr Sliz, PhD Tale. Mercè Crosas, PhD. Pete Meyer, PhD. Bill McKinney, JD MLS. Jason Key, PhD. Kyle Cranmer : Data Publication. Andreas Förster : XD.

data.sbgrid.org

SBGrid Data Bank

https://data.sbgrid.org/policies

Get Help ▼. For Depositors ▼. SBGrid Data Bank: Policies, Terms of Use and Guidelines. CC0 Public Domain Dedication Waiver for Datasets. For more information on CC0, please visit the Creative Commons website ( http:/ creativecommons.org/about/cc0. The SBDB asks that all users who download datasets follow our Community Norms:. Crediting any research used with data citations. Maintaining anonymity of human subjects. These Community Norms are not a substitute for the CC0 or custom licenses applicable to eac...

data.sbgrid.org

SBDB 414

https://data.sbgrid.org/dataset/414

Get Help ▼. For Depositors ▼. X-Ray Diffraction data from RctB-155-483, source of 5UBF structure. Data DOI: 10.15785/SBGRID/414. Publication DOI: 10.1093/nar/gkw1288. City College of New York. Release Date: Jan. 6, 2017. 1 If this dataset is locally available, it should be accessable at. 2 To download this dataset, please run the following command from your Terminal on a Linux or OS X workstation:. Rsync -av rsync:/ data.sbgrid.org/10.15785/SBGRID/414 .'. Harvard Medical School, USA). July 23, 2014.

data.sbgrid.org

SBGrid Data Bank

https://data.sbgrid.org/help/deposit

Get Help ▼. For Depositors ▼. This is the two-step process of registering and uploading your data for public access. What you need to get started:. Small image (200x200 pixels) representing your structure. Register your data online. Instructions and examples are included on the registration form and will display when you hover your mouse over one of the blue field headings. Your dataset is assigned a unique ID. The Principal Investigator (head of the SBGrid member laboratory) will receive an email detail...

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sbgrid.org

SBGrid - Software Consortium for Structural Biology

SBGrid In Your Lab. Jalview Developer Geoff Barton's desk with the JalviewAbacus (right) and displayed a dendrogram (tree) for the set of sequences shown in the alignment, using Jalview linked to Chimera. Read the full story here. From Michael Sattler's group: the ternary complex involving the tandem RNA recognition motif domains of Sxl, a cold-shock domain of the protein Unr bound to a specific RNA sequence motif. Read the details. And read more in eLIFE. Featuring Bob Langridge and Tom Ferrin. A graphi...

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Essays, short fiction. Writer and space tiger. Your Custom Text Here. Siân Griffiths directs the Creative Writing Program at Weber State University in Ogden, Utah. She holds a BA from the University of Idaho and an MA and PhD from the University of Georgia, where she specialized in fiction writing. Her work has appeared in. Quarterly West, Ninth Letter. Among many other publications. Her poem "Fistful," first published in. Was included in the 3rd edition of Janet Burroway's. And her debut novel,.

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