DataResources » History » Version 3
Anonymous, 07/11/2007 02:51 PM
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| 2 | 3 | Anonymous | h1. Data Resources |
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| 4 | 3 | Anonymous | |
| 5 | 3 | Anonymous | |
| 6 | 3 | Anonymous | h1. Dataset |
| 7 | 3 | Anonymous | |
| 8 | 1 | Anonymous | Protein structures can be obtained using the following ways:[[br]] |
| 9 | 3 | Anonymous | * *User*: Upload of arbitratry protein structures[[br]] |
| 10 | 3 | Anonymous | <pre> |
| 11 | 3 | Anonymous | <pre> |
| 12 | 3 | Anonymous | <pre> |
| 13 | 3 | Anonymous | <pre> |
| 14 | 3 | Anonymous | * *Local repository*: Copy of the PDB repository[[br]] |
| 15 | 3 | Anonymous | <pre> |
| 16 | 3 | Anonymous | <pre> |
| 17 | 3 | Anonymous | <pre> |
| 18 | 3 | Anonymous | <pre> |
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| 21 | 3 | Anonymous | |
| 22 | 3 | Anonymous | h1. Similarity Comparisons |
| 23 | 3 | Anonymous | |
| 24 | 1 | Anonymous | Similarity comparisons can be performed using the following resources:[[br]] |
| 25 | 3 | Anonymous | * *Local*: [[ProCKSI]] Cluster[[br]] |
| 26 | 3 | Anonymous | <pre> |
| 27 | 3 | Anonymous | <pre> |
| 28 | 3 | Anonymous | <pre> |
| 29 | 3 | Anonymous | <pre> |
| 30 | 3 | Anonymous | <pre> |
| 31 | 3 | Anonymous | * *Remote*: University Cluster or the Grid |
| 32 | 3 | Anonymous | <pre> |
| 33 | 3 | Anonymous | <pre> |
| 34 | 3 | Anonymous | <pre> |
| 35 | 3 | Anonymous | <pre> |
| 36 | 3 | Anonymous | * *External*: Web services |
| 37 | 3 | Anonymous | <pre> |
| 38 | 3 | Anonymous | <pre> |
| 39 | 3 | Anonymous | <pre> |
| 40 | 3 | Anonymous | <pre> |
| 41 | 1 | Anonymous | |
| 42 | 3 | Anonymous | Overview of *Local Methods*: |
| 43 | 3 | Anonymous | ** DaliLite: "online":http://ekhidna.biocenter.helsinki.fi/dali_lite/downloads, "repository":https://psiren.cs.nott.ac.uk/projects/procksi/browser/Externals/Comparison/DaliLite.tgz |
| 44 | 3 | Anonymous | ** TM-align: "online":http://zhang.bioinformatics.ku.edu/TM-align/, "repository":https://psiren.cs.nott.ac.uk/projects/procksi/browser/Externals/Comparison/TMalign.tgz |
| 45 | 3 | Anonymous | ** FAST: "online":http://biowulf.bu.edu/FAST/, "repository":https://psiren.cs.nott.ac.uk/projects/procksi/browser/Externals/Comparison/FAST.tgz?format=raw |
| 46 | 3 | Anonymous | ** CE: "online":http://cl.sdsc.edu/, "repository":https://psiren.cs.nott.ac.uk/projects/procksi/browser/Externals/Comparison/CE.tgz |
| 47 | 3 | Anonymous | ** LGA: "online":http://www.llnl.gov/ipac/technology/software/softwaretitles/lga.php |
| 48 | 3 | Anonymous | ** FlexProt: "online":http://bioinfo3d.cs.tau.ac.il/FlexProt/ |
| 49 | 3 | Anonymous | ** SSM: "online":http://www.ebi.ac.uk/msd-srv/ssm/ssmstart.html |
| 50 | 1 | Anonymous | |
| 51 | 1 | Anonymous | |
| 52 | 3 | Anonymous | Overview of *Web Services*:[[br]] |
| 53 | 3 | Anonymous | ** CATH-SSAP (in development): "WSDL":http://www.cathdb.info/wsdl/Ssap.wsdl |
| 54 | 3 | Anonymous | ** Vorolign (in development): "online":http://www.bio.ifi.lmu.de/Vorolign/ |
| 55 | 3 | Anonymous | ** Web services at the "Barcelona Supercomputing Center":http://inb.bsc.es/services/documentation/services.php |
| 56 | 3 | Anonymous | ** Web services at the "European Bioinformatics Institute":http://www.ebi.ac.uk/Tools/webservices/ |
| 57 | 1 | Anonymous | |
| 58 | 3 | Anonymous | |
| 59 | 3 | Anonymous | h1. Further Information |
| 60 | 3 | Anonymous | |
| 61 | 1 | Anonymous | Further information for one given protein structure can be obtained from the following sources: |
| 62 | 3 | Anonymous | * PDB repository: "* CATH: [http://www.cathdb.info/":http://www.pdb.org/] |
| 63 | 3 | Anonymous | * SCOP: "* iHOP: [http://www.ihop-net.org/":http://scop.mrc-lmb.cam.ac.uk/scop/] |