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  • Plugin test cases 0.89
    Create new view: no Use canonical expansion: no
    10 KB (1,397 words) - 17:26, 25 June 2010
  • Donations
    ...oblems. iRefIndex is entirely supported by Donaldson Research and receives no external funding. Small donations (less than $50) are appreciated and will <input type="image" src="https://www.paypalobjects.com/en_US/NO/i/btn/btn_donateCC_LG.gif" border="0" name="submit" alt="PayPal - The safer
    1 KB (173 words) - 09:48, 23 April 2015
  • iRefScape Test Cases 1.0
    Create new view: no Use canonical expansion: no
    24 KB (3,634 words) - 17:32, 24 November 2011
  • iRefIndex Testing 7.0
    === Program to use : biotek.uio.no.XML.Element_Counter (SaxValidator package)=== After parsing it is important to make sure there is no overlap in the UID:
    12 KB (1,682 words) - 10:21, 14 December 2010
  • Bioscape Result Assessment
    | No (may co-exist with correct suggestion) | No
    10 KB (1,540 words) - 16:48, 15 July 2010
  • Mapping of terms to MI term ids - iRefIndex 6.0
    ...ta record lists a term where a controlled vocabulary term is expected, and no controlled vocabulary term identifier is found, the term found in the recor # For interaction types where no cv term id is listed.
    31 KB (4,505 words) - 12:50, 7 April 2011
  • Advanced iRefWeb searches
    / in the rigid is no problem in my browser ...to do with the input boxes on the search form. In these three case there's no "q=". See table below.
    3 KB (522 words) - 01:14, 5 August 2010
  • Bioseminar
    ...vents/tuesday-seminar/ Tuesday Seminar] page of the [http://www.biotek.uio.no/ Biotechnology Centre's Web site]. See the [http://www.biotek.uio.no/events/tuesday-seminar/directions/ directions] for information on getting t
    9 KB (1,185 words) - 23:06, 24 November 2011
  • Sources iRefIndex 9.0
    Database: iRefIndex (http://irefindex.uio.no) ...n: Biotechnology Centre of Oslo, University of Oslo (http://www.biotek.uio.no/)
    6 KB (826 words) - 11:13, 20 April 2012
  • Plugin test cases 0.8
    Create new view: no Use canonical expansion: no
    20 KB (3,064 words) - 12:43, 15 June 2010
  • Plugin test cases 0.85
    Create new view: no Use canonical expansion: no
    28 KB (4,119 words) - 14:30, 18 June 2010
  • Plugin test cases 0.86
    Create new view: no Use canonical expansion: no
    28 KB (4,119 words) - 00:10, 19 June 2010
  • Sources iRefIndex 8.0
    Database: iRefIndex (http://irefindex.uio.no) ...n: Biotechnology Centre of Oslo, University of Oslo (http://www.biotek.uio.no/)
    6 KB (795 words) - 08:45, 20 January 2011
  • Sources iRefIndex 7.0
    Database: iRefIndex (http://irefindex.uio.no) ...n: Biotechnology Centre of Oslo, University of Oslo (http://www.biotek.uio.no/)
    5 KB (775 words) - 21:28, 20 September 2010
  • Bioscape Tokenisation
    ...ecomes advisable to discard commonly occurring tokens which have little or no value when attempting to search for terms. Thus, a collection of common "st ...ble search term mention, considering such issues as token adjacency, it is no longer sufficient to investigate tokens between those matching the search t
    6 KB (954 words) - 13:45, 14 July 2010
  • Sources and Issues Next Release
    *For statistics on full public dataset please refer to: http://irefindex.uio.no/wiki/Statistics_iRefIndex_xxx ...distributed on the FTP site contains) please refer to:http://irefindex.uio.no/wiki/Statistics_iRefIndex_free_xxx
    11 KB (1,675 words) - 11:47, 26 February 2014
  • DiG: Disease groups
    The human interaction network is taken from the [http://irefindex.uio.no iRefIndex] resource and the creation of the disease gene list is described ...n Morbid Map. Despite this effort, there were about 140 unresolved cases (no hit or too many hits) in the Morbid Map.
    10 KB (1,459 words) - 11:55, 17 October 2011
  • iRefIndex Development
    <ref choice="no" /> <sql id="23" userefs="no" >
    40 KB (4,270 words) - 16:04, 26 October 2012
  • iRefScape 1.0 Installation
    # Make sure that no other versions of the iRefScape plugin are already installed. If you see iR <description>.&lt;br&gt;http://irefindex.uio.no/wiki/README_Cytoscape_plugin_0.8x&lt;p&gt;</description>
    18 KB (2,800 words) - 20:08, 14 March 2013
  • Bioscape Configuration
    ...the <tt>bioscape_configure.py</tt> program. Where an existing cluster has no active databases, it can be appropriate to drop and recreate the cluster wi
    5 KB (714 words) - 13:38, 14 July 2010
  • iRefScape 0.8 Installation
    #* URL: <tt>ftp://ftp.no.embnet.org/irefindex/Cytoscape/plugin/current/plugins_irefindex.xml</tt> <description>.&lt;br&gt;http://irefindex.uio.no/wiki/README_Cytoscape_plugin_0.8x&lt;p&gt;</description>
    15 KB (2,297 words) - 16:09, 6 July 2011
  • Bioscape Searching
    ...ey would only be known upon being found, and thus there would obviously be no need to record such regions in a lexicon for the purposes of searching for ...ondary concern. Upon recording a matching region as a search result, since no predefined notion of the region exists, a special identifier needs to be us
    24 KB (3,501 words) - 13:46, 14 July 2010
  • Bioscape Indexing
    ...ne identifier, by submitting empty documents for all identifiers for which no document exists in the genuine identifier scheme. From the example above, t
    6 KB (874 words) - 13:45, 14 July 2010
  • Bioscape Data Sources
    ...ty of the downloaded data; Entrez Gene data files are acquired by FTP with no such integrity tests employed. Other remote repositories could be accessed
    6 KB (979 words) - 13:39, 14 July 2010
  • Canonicalization
    ...l form. If two or more such proteins existed, the longest was chosen. If no canonical UniProt sequences existed, the longest protein sequence associate
    6 KB (981 words) - 16:44, 14 March 2013
  • README iRefIndex Feedback 8.0
    Database: iRefIndex (http://irefindex.uio.no) (http://www.biotek.uio.no/)
    17 KB (2,607 words) - 08:48, 20 January 2011
  • iRefScape 0.8
    ...ww.ncbi.nlm.nih.gov/pubmed. Iterations and "Use canonical expansion" have no effect on this search type. This search will return all protein interactor .... <tt>147805</tt> returns records from both BIND and BioGrid) and there is no way to limit this search to a specific database at this time.
    33 KB (5,470 words) - 16:18, 6 July 2011
  • README iRefIndex Feedback 9.0
    Database: iRefIndex (http://irefindex.uio.no) (http://www.biotek.uio.no/)
    18 KB (2,645 words) - 17:38, 9 November 2011
  • README iRefIndex expanded MITAB proposal
    * See http://irefindex.uio.no for links to the latest release and relevant README documentation. http://irefindex.uio.no/wiki/README_iRefIndex_experiment_MITAB_6.0
    52 KB (7,816 words) - 13:44, 27 October 2010
  • iRefScape 0.9
    ...ww.ncbi.nlm.nih.gov/pubmed. Iterations and "Use canonical expansion" have no effect on this search type. This search will return all protein interactor .... <tt>147805</tt> returns records from both BIND and BioGrid) and there is no way to limit this search to a specific database at this time.
    36 KB (5,904 words) - 16:13, 6 July 2011
  • Bioscape Scoring Techniques
    * no agreement (if explanation detected speculatively) * no agreement (if explanation detected speculatively)
    21 KB (2,669 words) - 13:44, 14 July 2010
  • Bioinformatics for molecular biology 2010
    http://bioinformatics.uio.no/wiki/Bioinformatics_course ...ourse is intended for biology students or computer science/math students. No prior background in bioinformatics or computer science is required.
    19 KB (2,793 words) - 22:48, 14 June 2011
  • iRefIndex Build Process
    ...Organism</tt> must be specified in turn when submitting the form: there is no <tt>ALL</tt> option. OPHID is no longer available, so you have to use the local copy of the data:
    47 KB (7,595 words) - 15:50, 4 October 2011
  • MBV9100
    Course page: http://www.uio.no/studier/emner/matnat/molbio/MBV9100BTS/index.xml General information: http://www.biotek.uio.no/events/courses_workshops/2011/MBV9100BTS.html
    6 KB (822 words) - 09:27, 25 October 2012
  • iRefScape 1.0
    ...efScape/archive/e12f853c5951.tar.gz tar.gz archive], [http://irefindex.uio.no/hg/iRefScape/archive/e12f853c5951.zip zip archive] ** [http://irefindex.uio.no/hg/iRefScape/file/e12f853c5951 Source browser]
    45 KB (7,264 words) - 11:10, 19 March 2013
  • README MITAB2.6 for iRefIndex 11.0
    ===Identifiers appearing in column 1 (or 2) are no longer duplicated in column 3 (or 4) === ...cases, a rogid may appear here if a protein interactor has a sequence but no known, valid ''<tt>database:accession</tt>'' pair.
    51 KB (7,688 words) - 10:45, 27 May 2013
  • Bioinformatics for molecular biology 2011
    http://bioinformatics.uio.no/wiki/Bioinformatics_course ...ourse is intended for biology students or computer science/math students. No prior background in bioinformatics or computer science is required.
    17 KB (2,539 words) - 11:32, 22 August 2012
  • README MITAB2.6 for iRefIndex 12.0
    ===Identifiers appearing in column 1 (or 2) are no longer duplicated in column 3 (or 4) === ...cases, a rogid may appear here if a protein interactor has a sequence but no known, valid ''<tt>database:accession</tt>'' pair.
    52 KB (7,804 words) - 09:47, 21 June 2013
  • README MITAB2.6 for iRefIndex 13.0
    ===Identifiers appearing in column 1 (or 2) are no longer duplicated in column 3 (or 4) === ...cases, a rogid may appear here if a protein interactor has a sequence but no known, valid ''<tt>database:accession</tt>'' pair.
    53 KB (7,878 words) - 10:30, 13 December 2013
  • Mapping of terms to MI term ids - iRefIndex 8.0
    ...ta record lists a term where a controlled vocabulary term is expected, and no controlled vocabulary term identifier is found, the term found in the recor # For interaction types where no cv term id is listed.
    26 KB (3,077 words) - 12:50, 7 April 2011
  • README MITAB2.6 for iRefIndex 14.0
    ===Identifiers appearing in column 1 (or 2) are no longer duplicated in column 3 (or 4) === ...cases, a rogid may appear here if a protein interactor has a sequence but no known, valid ''<tt>database:accession</tt>'' pair.
    55 KB (8,209 words) - 09:44, 23 July 2016
  • README MITAB2.6 for iRefIndex 9.0
    default [ftp://ftp.no.embnet.org/irefindex/data/archive/release_9.0/psimi_tab/MITAB2.6/] Download location: ftp://ftp.no.embnet.org/irefindex/data/archive/release_9.0/psimi_tab/MITAB2.6/<br>(use <
    53 KB (7,933 words) - 10:41, 4 December 2012
  • iRefScape plugin menu
    This action has no effect for networks for which this operation has already been performed usi
    9 KB (1,459 words) - 15:45, 6 July 2011
  • README MITAB2.6 for iRefIndex 15.0
    A extension to PSI-MITAB 2.6 has been recently introduced. We have no plan to migrate to the new 2.7 standard in the foreseeable future. Many of ...cases, a rogid may appear here if a protein interactor has a sequence but no known, valid ''<tt>database:accession</tt>'' pair.
    52 KB (7,771 words) - 16:03, 10 March 2018
  • README MITAB2.6 for iRefIndex 16.0
    A extension to PSI-MITAB 2.6 has been recently introduced. We have no plan to migrate to the new 2.7 standard in the foreseeable future. Many of ...cases, a rogid may appear here if a protein interactor has a sequence but no known, valid ''<tt>database:accession</tt>'' pair.
    52 KB (7,785 words) - 09:48, 9 October 2019
  • README MITAB2.6 for iRefIndex 18.0
    A extension to PSI-MITAB 2.6 has been recently introduced. We have no plan to migrate to the new 2.7 standard in the foreseeable future. Many of ...cases, a rogid may appear here if a protein interactor has a sequence but no known, valid ''<tt>database:accession</tt>'' pair.
    52 KB (7,774 words) - 10:25, 20 August 2021
  • README MITAB2.6 for iRefIndex 17.0
    A extension to PSI-MITAB 2.6 has been recently introduced. We have no plan to migrate to the new 2.7 standard in the foreseeable future. Many of ...cases, a rogid may appear here if a protein interactor has a sequence but no known, valid ''<tt>database:accession</tt>'' pair.
    52 KB (7,778 words) - 19:31, 30 June 2020
  • README iRefIndex MITAB2.6 proposal for 7.0
    * See http://irefindex.uio.no for links to the latest release and relevant README documentation. http://irefindex.uio.no/wiki/README_iRefIndex_expanded_MITAB_proposal
    54 KB (8,103 words) - 12:20, 19 October 2010
  • README MITAB2.6 for iRefIndex 8.0
    Download location: ftp://ftp.no.embnet.org/irefindex/data/current/psimi_tab/MITAB2.6/ Database: iRefIndex (http://irefindex.uio.no)
    49 KB (7,401 words) - 12:34, 17 October 2011
  • README MITAB2.6 for iRefIndex 20.0
    A extension to PSI-MITAB 2.6 has been recently introduced. We have no plan to migrate to the new 2.7 standard in the foreseeable future. Many of ...cases, a rogid may appear here if a protein interactor has a sequence but no known, valid ''<tt>database:accession</tt>'' pair.
    56 KB (8,235 words) - 06:27, 29 August 2023
  • README MITAB2.6 for iRefIndex 19.0
    A extension to PSI-MITAB 2.6 has been recently introduced. We have no plan to migrate to the new 2.7 standard in the foreseeable future. Many of ...cases, a rogid may appear here if a protein interactor has a sequence but no known, valid ''<tt>database:accession</tt>'' pair.
    56 KB (8,227 words) - 12:11, 9 August 2023
  • README MITAB2.6 for iRefIndex 7.0
    Download location: ftp://ftp.no.embnet.org/irefindex/data/current/psimi_tab/MITAB2.6/ Database: iRefIndex (http://irefindex.uio.no)
    51 KB (7,623 words) - 15:44, 25 October 2010
  • Bioscape Searching Techniques
    ...larly those where the nature of the searching is speculative, meaning that no predefined lists of search terms is used, but where certain characteristic
    12 KB (1,525 words) - 13:46, 14 July 2010
  • README MITAB2.6 for iRefIndex 10.0
    ...cases, a rogid may appear here if a protein interactor has a sequence but no known, valid ''<tt>database:accession</tt>'' pair. For complexes and when no role is explicitly specified this column will contain the following:
    52 KB (7,812 words) - 12:00, 5 April 2013
  • Statistics iRefIndex 16.0
    ...ieve the current accession and/or sequence. For the identifiers still with no sequence after going through eUtils, sequence information obtained from Uni
    18 KB (1,615 words) - 18:26, 4 October 2019
  • Statistics iRefIndex 15.0
    ...ieve the current accession and/or sequence. For the identifiers still with no sequence after going through eUtils, sequence information obtained from Uni
    18 KB (1,621 words) - 16:51, 4 February 2018
  • Statistics iRefIndex 14.0
    ...ieve the current accession and/or sequence. For the identifiers still with no sequence after going through eUtils, sequence information obtained from Uni
    20 KB (1,681 words) - 14:08, 21 April 2015
  • Statistics iRefIndex 18.0
    ...ieve the current accession and/or sequence. For the identifiers still with no sequence after going through eUtils, sequence information obtained from Uni
    19 KB (1,654 words) - 09:02, 10 June 2021
  • Statistics iRefIndex 13.0
    ...ieve the current accession and/or sequence. For the identifiers still with no sequence after going through eUtils, sequence information obtained from Uni
    18 KB (1,423 words) - 13:36, 11 December 2013
  • Statistics iRefIndex 20.0
    ...ieve the current accession and/or sequence. For the identifiers still with no sequence after going through eUtils, sequence information obtained from Uni
    21 KB (1,651 words) - 05:39, 28 August 2023
  • Statistics iRefIndex 19.0
    ...ieve the current accession and/or sequence. For the identifiers still with no sequence after going through eUtils, sequence information obtained from Uni
    21 KB (1,683 words) - 07:43, 30 October 2022
  • Statistics iRefIndex 17.0
    ...ieve the current accession and/or sequence. For the identifiers still with no sequence after going through eUtils, sequence information obtained from Uni
    21 KB (1,674 words) - 20:16, 30 June 2020
  • README iRefIndex MITAB experiment proposal for 7.0
    * See http://irefindex.uio.no for links to the latest release and relevant README documentation. Download location: ftp://ftp.no.embnet.org/irefindex/data/archive/release_7.0/psimi_tab/Experiment_centric/
    29 KB (4,420 words) - 13:29, 27 October 2010
  • Statistics iRefIndex 8.0
    * Full list [[http://irefindex.uio.no/wikifiles//images/1/15/Interactions_by_taxonomy_beta8_original.pdf]] * Full list [[http://irefindex.uio.no/wikifiles//images/c/c3/Interactions_by_taxonomy_beta8_corected.pdf]]
    20 KB (1,610 words) - 16:30, 12 January 2011
  • Statistics iRefIndex 9.0
    ...ieve the current accession and/or sequence. For the identifiers still with no sequence after going through eUtils, sequence information obtained from Uni
    22 KB (1,518 words) - 13:45, 16 February 2012
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