Datasets » History » Version 19
Version 18 (Anonymous, 04/23/2008 09:39 AM) → Version 19/21 (Anonymous, 04/23/2008 09:39 AM)
h1. = Datasets
h2. =
== How to label datasets
==
Datasets are labeled in the following way:
<pre>
[[DatasetName]].tgz {{{
[[DatasetName]]_Literature.tgz DatasetName.tgz
[[DatasetName]]_NumberOfChains_Extraction.tgz DatasetName_Literature.tgz
</pre>
DatasetName_NumberOfChains_Extraction.tgz
}}}
whereas:
|| *!DatasetName* '''!DatasetName''' || Authors or web that site proposed the dataset
|| *Literature* '''Literature''' || Special name given in the literatur
|| *!NumberOfChains* '''!NumberOfChains''' || Number of (extracted) chains contained in the dataset
|| *Extraction* '''Extraction''' || Extraction of the models/chains: _none_, _first-first_, _first-all_, _all-all_
h2. ''none'', ''first-first'', ''first-all'', ''all-all''
== Available Datasets
==
The following datasets are available from the repository (special privileges required!):
|| *!DatasetName* '''!DatasetName''' || *Extraction* '''Extraction''' || *!NumberOfChains* '''!NumberOfChains''' || *Size '''Size in MB* MB''' || *Link* '''Link'''
|| LelukKoniecznyRoterman !LelukKoniecznyRoterman || - || - || 3.5 || [/procksi/datasets/LelukKoniecznyRoterman.tgz Download]
|| || first-first || 6 || 0.4 || [/procksi/datasets/LelukKoniecznyRoterman_6_first-first.tgz Download]
|| || first-all || 15 || 0.9 || [/procksi/datasets/LelukKoniecznyRoterman_15_first-all.tgz Download]
|| *!DatasetName* '''!DatasetName''' || *Extraction* '''Extraction''' || *!NumberOfChains* '''!NumberOfChains''' || *Size '''Size in MB* MB''' || *Link* '''Link'''
|| ChewKedem !ChewKedem || - || - || 3.8 || [/procksi/datasets/ChewKedem.tgz Download]
|| || first-first || 34 || 1.3 || [/procksi/datasets/ChewKedem_34_first-first.tgz Download]
|| || first-all || 54 || 2.0 || [/procksi/datasets/ChewKedem_54_first-all.tgz Download]
|| || all-all || 132 || 4.1 || [/procksi/datasets/ChewKedem_132_all-all.tgz Download]
|| *!DatasetName* '''!DatasetName''' || *Extraction* '''Extraction''' || *!NumberOfChains* '''!NumberOfChains''' || *Size '''Size in MB* MB''' || *Link* '''Link'''
|| ProteinKinaseResource !ProteinKinaseResource || - || - || 3.6 || [/procksi/datasets/ProteinKinaseResource.tgz Download]
|| || first-first || 45 || 2.4 || [/procksi/datasets/ProteinKinaseResource_45_first-first.tgz Download]
|| || first-all || 49 || 2.5 || [/procksi/datasets/ProteinKinaseResource_49_first-all.tgz Download]
|| || all-all || 106 || 4.0 || [/procksi/datasets/ProteinKinaseResource_106_all-all.tgz Download]
|| *!DatasetName* '''!DatasetName''' || *Extraction* '''Extraction''' || *!NumberOfChains* '''!NumberOfChains''' || *Size '''Size in MB* MB''' || *Link* '''Link'''
|| Skolnick || - || - || 5.1 || [/procksi/datasets/Skolnick.tgz Download]
|| || first-first || 33 || 1.1 || [/procksi/datasets/Skolnick_33_first-first.tgz Download]
|| || first-all || 65 || 2.1 || [/procksi/datasets/Skolnick_65_first-all.tgz Download]
|| || all-all || 179 || 5.9 || [/procksi/datasets/Skolnick_179_all-all.tgz Download]
|| *!DatasetName* '''!DatasetName''' || *Extraction* '''Extraction''' || *!NumberOfChains* '''!NumberOfChains''' || *Size '''Size in MB* MB''' || *Link* '''Link'''
|| RostSander !RostSander || - || - || 7.4 || [/procksi/datasets/RostSander.tgz Download]
|| || RS126 || 126 || 4.3 || [/procksi/datasets/RostSander_RS126.tgz Download]
|| || first-first || 119 || 4.4 || [/procksi/datasets/RostSander_119_first-first.tgz Download]
|| || first-all || 212 || 7.6 || [/procksi/datasets/RostSander_212_first-all.tgz Download]
|| *!DatasetName* '''!DatasetName''' || *Extraction* '''Extraction''' || *!NumberOfChains* '''!NumberOfChains''' || *Size '''Size in MB* MB''' || *Link* '''Link'''
|| KinjoHorimotoNishikawa !KinjoHorimotoNishikawa || - || - || 98 || [/procksi/datasets/KinjoHorimotoNishikawa.tgz Download]
|| || first-first || 1012 || 46 || [/procksi/datasets/KinjoHorimotoNishikawa_1012_first-first.tgz Download]
|| || first-all || 2013 || 88 || [/procksi/datasets/KinjoHorimotoNishikawa_2013_first-all.tgz Download]
|| *!DatasetName* '''!DatasetName''' || *Description* '''Description''' || *Extraction* '''Extraction''' || *!NumberOfChains* '''!NumberOfChains''' || *Size '''Size in MB* MB''' || *Link* '''Link'''
|| Shah || Randomly selected 1000 proteins from PDB || - || - || 114 || [/procksi/datasets/Shah.tgz Download]
|| || || first-first || 1000 || 41 || [/procksi/datasets/Shah_1000_first-first.tgz Download]
|| || || first-all || 1943 || 80 || [/procksi/datasets/Shah_1943_first-all.tgz Download]
|| || || all-all || 4007 || 124 || [/procksi/datasets/Shah_4007_all-all.tgz Download]
|| *!DatasetName* '''!DatasetName''' || *Description* '''Description''' || *Extraction* '''Extraction''' || *!NumberOfChains* '''!NumberOfChains''' || *Size '''Size in GB* GB''' || *Link* '''Link'''
|| PDB_SELECT30_04-2008 || Downloaded from PDB web site on 10/04/2008 || - || - || *1.1*, '''1.1''', ucmp*: *4.8* '''4.8''' || [/procksi/datasets/PDB_SELECT30_04-2008_7307.tar.gz Download] ||
|| || with criteria "Remove similar sequences at 30% identity" || first-first || 7183 || *0.285*, '''0.285''', ucmp*: *1.2* '''1.2''' || [/procksi/datasets/PDB_SELECT30_04-2008_7183_first-first.tar.gz Download]
|| || || first-all || 14651 || *0.60* '''0.60''' , ucmp:*2.7* ucmp:'''2.7''' || [/procksi/datasets/PDB_SELECT30_04-2008_14651_first-all.tar.gz Download]
|| || || all-all || 43025 || *1.2* '''1.2''' , ucmp*: *5.5* '''5.5''' || [/procksi/datasets/PDB_SELECT30_04-2008_43025_all-all.tar.gz Download]
|| *!DatasetName* '''!DatasetName''' || *Description* '''Description''' || *Extraction * '''Extraction ''' || *!NumberOfChains* '''!NumberOfChains''' || *Size '''Size in GB* GB''' || *Link* '''Link'''
|| PDB_SELECT25_10-2007 || PDB_SELECT25 as of October2007 || - || - || *0.746*, '''0.746''', ucmp*: *3.4* '''3.4''' || [/procksi/datasets/PDB_SELECT25_10-2007_3560.tar.gz Download]
|| || it's a six monthly updated list of- || first-first || 3464 ||*0.12*, ||'''0.12''', ucmp*: *0.54*, '''0.54''', || [/procksi/datasets/PDB_SELECT25_10-2007_3464_first-first.tar.gz Download]
|| || non-redundent protein structures || first-all || 8581 || *0.30*, '''0.30''', ucmp*: *1.4* '''1.4''' || [/procksi/datasets/PDB_SELECT25_10-2007_8581_first-all.tar.gz Download]
|| || Mostly used in Protein Structure Prediction || all-all ||31288 || *0.854* '''0.854''' , ucmp*: *4.1* '''4.1''' || [/procksi/datasets/PDB_SELECT25_10-2007_31288_all-all.tar.gz Download]
*ucmp: uncompressed