Datasets » History » Version 8

Anonymous, 04/11/2008 09:57 AM

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= Datasets =
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== How to label datasets ==
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Datasets are labeled in the following way:
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{{{
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DatasetName.tgz
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DatasetName_Literature.tgz
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DatasetName_NumberOfChains_Extraction.tgz
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}}}
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whereas:
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 || '''!DatasetName'''     || Authors or web that site proposed the dataset
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 || '''Literature'''       || Special name given in the literatur
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 || '''!NumberOfChains'''  || Number of (extracted) chains contained in the dataset
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 || '''Extraction'''       || Extraction of the models/chains: ''none'', ''first-first'', ''first-all'', ''all-all''
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== Available Datasets ==
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The following datasets are available from the repository (special privileges required!):
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 || '''!DatasetName'''      || '''Extraction'''   || '''!NumberOfChains''' || '''Size in MB''' || '''Link''' 
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 || !LelukKoniecznyRoterman || -            || -               || 3.5        || [source:Datasets/LelukKoniecznyRoterman.tgz Download]
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 ||                         || first-first  || 6               || 0.4        || [source:Datasets/LelukKoniecznyRoterman_6_first-first.tgz Download]
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 ||                         || first-all    || 15              || 0.9        || [source:Datasets/LelukKoniecznyRoterman_15_first-all.tgz Download]
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 || '''!DatasetName'''      || '''Extraction'''   || '''!NumberOfChains''' || '''Size in MB''' || '''Link''' 
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 || !ChewKedem              || -            || -               || 3.8        || [source:Datasets/ChewKedem.tgz Download]
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 ||                         || first-first  || 34              || 1.3        || [source:Datasets/ChewKedem_34_first-first.tgz Download]
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 ||                         || first-all    || 54              || 2.0        || [source:Datasets/ChewKedem_54_first-all.tgz Download]
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 ||                         || all-all      || 132             || 4.1        || [source:Datasets/ChewKedem_132_all-all.tgz Download]
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 || '''!DatasetName'''      || '''Extraction'''   || '''!NumberOfChains''' || '''Size in MB''' || '''Link''' 
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 || !ProteinKinaseResource  || -            || -               || 3.6        || [source:Datasets/ProteinKinaseResource.tgz Download]
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 ||                         || first-first  || 45              || 2.4        || [source:Datasets/ProteinKinaseResource_45_first-first.tgz Download]
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 ||                         || first-all    || 49              || 2.5        || [source:Datasets/ProteinKinaseResource_49_first-all.tgz Download]
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 ||                         || all-all      || 106             || 4.0        || [source:Datasets/ProteinKinaseResource_106_all-all.tgz Download]
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 || '''!DatasetName'''      || '''Extraction'''   || '''!NumberOfChains''' || '''Size in MB''' || '''Link''' 
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 || Skolnick                || -            || -               || 5.1        || [source:Datasets/Skolnick.tgz Download]
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 ||                         || first-first  || 33              || 1.1        || [source:Datasets/Skolnick_33_first-first.tgz Download]
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 ||                         || first-all    || 65              || 2.1        || [source:Datasets/Skolnick_65_first-all.tgz Download]
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 ||                         || all-all      || 179             || 5.9        || [source:Datasets/Skolnick_179_all-all.tgz Download]
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 || '''!DatasetName'''      || '''Extraction'''   || '''!NumberOfChains''' || '''Size in MB''' || '''Link''' 
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 || !RostSander             || -            || -               || 7.4        || [source:Datasets/RostSander.tgz Download]
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 ||                         || RS126        || 126             || 4.3        || [source:Datasets/RostSander_RS126.tgz Download]
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 ||                         || first-first  || 119             || 4.4        || [source:Datasets/RostSander_119_first-first.tgz Download]
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 ||                         || first-all    || 212             || 7.6        || [source:Datasets/RostSander_212_first-all.tgz Download]
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 || '''!DatasetName'''            || '''Extraction'''   || '''!NumberOfChains''' || '''Size in MB''' || '''Link''' 
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 || !KinjoHorimotoNishikawa || -            || -               || 98         || [source:Datasets/KinjoHorimotoNishikawa.tgz Download]
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 ||                         || first-first  || 1012            || 46         || [source:Datasets/KinjoHorimotoNishikawa_1012_first-first.tgz Download]
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 ||                         || first-all    || 2013            || 88         || [source:Datasets/KinjoHorimotoNishikawa_2013_first-all.tgz Download]
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 || '''!DatasetName'''  || '''Description'''          || '''Extraction type / time'''   || '''!NumberOfChains''' || '''Size in MB'''         || '''Link''' 
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 || Shah1                || Randomly selected 1000 proteins from PDB     || -            || -               || 114         || [source:Datasets/Shah.tgz Download]                   
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 ||                     ||                            || first-first  || 1000            || 41          || [source:Datasets/Shah_1000_first-first.tgz Download]
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 ||                     ||                            || first-all    || 1943            || 80          || [source:Datasets/Shah_1943_first-all.tgz Download]
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 ||                     ||                            || all-all      || 4007            || 124         || [source:Datasets/Shah_4007_all-all.tgz Download]
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 || '''!DatasetName'''  || '''Description'''          || '''Extraction type / time'''   || '''!NumberOfChains''' || '''Size in GB'''         || '''Link''' 
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 || Shah2               || Downloaded from PDB web site on 10/04/2007               || -            || -               || compressed: 1.1, un-compressed: 4.8         ||                    
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 ||                     || with criteria "Remove similar sequences at 30% identity"           || first-first  || 7307            ||          || 
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 ||                     ||                            || first-all    ||                 ||           || 
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 ||                     ||                            || all-all      ||                 ||          ||  
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 || '''!DatasetName'''  || '''Description'''          || '''Extraction type / time'''   || '''!NumberOfChains''' || '''Size in GB'''         || '''Link''' 
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 || Shah3               || PDB_SELECT25  as of October2007            || -            || -               || compressed: 0.746   , un-compressed: 3.4         ||                    
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 ||                     || it's a six monthly updated list of-       || first-first  || 3560            ||           || 
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 ||                     || non-redundent protein structures                           || first-all    ||                 ||           || 
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 ||                     || Mostly used in Protein Structure Prediction                           || all-all      ||                 ||          ||