[go-diff] GO update 08/02/2007

Remote CVS for Gene Ontology gocvs at genome.Stanford.EDU
Thu Aug 2 21:30:39 PDT 2007 

OBODIFF of gene_ontology_edit.obo version 5.437 by 5.439

Starting obodiff at /share/go/bin/oboedit/current using 256M of memory
* Created object of type obo:TERM with id GO:0033562
* Created object of type obo:TERM with id GO:0033563
* Created object of type obo:TERM with id GO:0033564
* Created object of type obo:TERM with id GO:0033565
* Created object of type obo:TERM with id GO:0033566
* Created object of type obo:TERM with id GO:0033567
* Created object of type obo:TERM with id GO:0033568
* Created object of type obo:TERM with id GO:0033569
* Created object of type obo:TERM with id GO:0033570
* Created object of type obo:TERM with id GO:0033571
* Created object of type obo:TERM with id GO:0033572
* Created object of type obo:TERM with id GO:0033573
* Created object of type obo:TERM with id GO:0033574
* Created object of type obo:TERM with id GO:0043887
* Created object of type obo:TERM with id GO:0043888
* Created object of type obo:TERM with id GO:0043889
* Populated new object GO:0033562 (macro)
  * Changed name of GO:0033562 from "<new term>" to "small RNA-mediated cotranscriptional gene silencing"
  * Set definition of GO:0033562 to "A process by which the targeting of nascent transcripts by the RITS complex mediates chromatin modifications and promotes the degradation of nascent transcripts synthesized in heterochromatic regions."
  * Added definition dbxref GOC:mah to GO:0033562
  * Added definition dbxref PMID:17512405 to GO:0033562
  * Copied GO:0033562 to GO:0031047 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0033562
* Populated new object GO:0033563 (macro)
  * Changed name of GO:0033563 from "<new term>" to "dorsal/ventral axon guidance"
  * Set definition of GO:0033563 to "The process by which the migration of an axon growth cone is directed to a specific target site along the dorsal-ventral body axis in response to a combination of attractive and repulsive cues."
  * Added definition dbxref GOC:kva to GO:0033563
  * Added synonym "dorsal-ventral axon guidance" to GO:0033563
  * Changed synonym scope of GO:0033563 from "Related" to "Exact"
  * Copied GO:0033563 to GO:0007411 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0033563
* Populated new object GO:0033564 (macro)
  * Changed name of GO:0033564 from "<new term>" to "anterior/posterior axon guidance"
  * Set definition of GO:0033564 to "The process by which the migration of an axon growth cone is directed to a specific target site along the anterior-posterior body axis in response to a combination of attractive and repulsive cues."
  * Added definition dbxref GOC:kva to GO:0033564
  * Added synonym "anterior-posterior axon guidance" to GO:0033564
  * Changed synonym scope of GO:0033564 from "Related" to "Exact"
  * Copied GO:0033564 to GO:0007411 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0033564
* Populated new object GO:0033565 (macro)
  * Changed name of GO:0033565 from "<new term>" to "Vps27p-Hse1p complex"
  * Set definition of GO:0033565 to "A protein complex required for the recycling of Golgi proteins, formation of lumenal membranes and sorting of ubiquitinated proteins into those membranes. This complex includes Vps1p and Hse1p in yeast and the Hrs and STAM proteins in mammals."
  * Added definition dbxref GOC:rb to GO:0033565
  * Added definition dbxref PMID:12055639 to GO:0033565
  * Added definition dbxref PMID:17543868 to GO:0033565
  * Copied GO:0033565 to GO:0044440 with type OBO_REL:is_a
  * Copied GO:0033565 to GO:0043234 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0033565
* Populated new object GO:0033566 (macro)
  * Changed name of GO:0033566 from "<new term>" to "gamma-tubulin complex localization"
  * Set definition of GO:0033566 to "The processes by which a gamma-tubulin complex is transported to, or maintained in, a specific location."
  * Added definition dbxref GOC:mah to GO:0033566
  * Copied GO:0033566 to GO:0031503 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0033566
* Populated new object GO:0033567 (macro)
  * Changed name of GO:0033567 from "<new term>" to "DNA replication, Okazaki fragment processing"
  * Set definition of GO:0033567 to "The DNA metabolic process, occurring during lagging strand synthesis, by which RNA primers are removed from Okazaki fragments, the resulting gaps filled by DNA polymerization, and the ends ligated to form a continuous strand."
  * Added definition dbxref GOC:mah to GO:0033567
  * Added definition dbxref ISBN:0716720094 to GO:0033567
  * Copied GO:0033567 to GO:0006259 with type OBO_REL:is_a
  * Copied GO:0033567 to GO:0006273 with type part_of
  * Assigned namespace "biological_process" to GO:0033567
* Populated new object GO:0033568 (macro)
  * Changed name of GO:0033568 from "<new term>" to "lactoferrin receptor activity"
  * Set definition of GO:0033568 to "Combining with lactoferrin to initiate a change in cell activity."
  * Added definition dbxref GOC:mlg to GO:0033568
  * Copied GO:0033568 to GO:0004888 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0033568
* Populated new object GO:0033569 (macro)
  * Changed name of GO:0033569 from "<new term>" to "lactoferrin transmembrane transporter activity"
  * Set definition of GO:0033569 to "Catalysis of the transfer of lactoferrin from one side of a membrane to the other."
  * Added definition dbxref GOC:mlg to GO:0033569
  * Copied GO:0033569 to GO:0015450 with type OBO_REL:is_a
  * Copied GO:0033569 to GO:0015091 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0033569
* Populated new object GO:0033570 (macro)
  * Changed name of GO:0033570 from "<new term>" to "transferrin transmembrane transporter activity"
  * Set definition of GO:0033570 to "Catalysis of the transfer of transferrin from one side of a membrane to the other."
  * Added definition dbxref GOC:mlg to GO:0033570
  * Copied GO:0033570 to GO:0015450 with type OBO_REL:is_a
  * Copied GO:0033570 to GO:0015091 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0033570
* Populated new object GO:0033571 (macro)
  * Changed name of GO:0033571 from "<new term>" to "lactoferrin transport"
  * Set definition of GO:0033571 to "The directed movement of lactoferrin into, out of, within or between cells."
  * Added definition dbxref GOC:mlg to GO:0033571
  * Copied GO:0033571 to GO:0015031 with type OBO_REL:is_a
  * Copied GO:0033571 to GO:0015682 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0033571
* Populated new object GO:0033572 (macro)
  * Changed name of GO:0033572 from "<new term>" to "transferrin transport"
  * Set definition of GO:0033572 to "The directed movement of transferrin into, out of, within or between cells."
  * Added definition dbxref GOC:mlg to GO:0033572
  * Copied GO:0033572 to GO:0015031 with type OBO_REL:is_a
  * Copied GO:0033572 to GO:0015682 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0033572
* Populated new object GO:0033573 (macro)
  * Changed name of GO:0033573 from "<new term>" to "high affinity iron permease complex"
  * Set definition of GO:0033573 to "A protein complex composed of a multicopper ferroxidase that oxidizes Fe(II) to Fe(III), and a ferric iron permease that transports the produced Fe(III) into the cell."
  * Added definition dbxref GOC:jp to GO:0033573
  * Added definition dbxref PMID:16522632 to GO:0033573
  * Added definition dbxref PMID:8599111 to GO:0033573
  * Copied GO:0033573 to GO:0043234 with type OBO_REL:is_a
  * Copied GO:0033573 to GO:0044459 with type OBO_REL:is_a
  * Assigned namespace "cellular_component" to GO:0033573
* Populated new object GO:0033574 (macro)
  * Changed name of GO:0033574 from "<new term>" to "response to testosterone stimulus"
  * Set definition of GO:0033574 to "A change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a testosterone stimulus."
  * Added definition dbxref GOC:sl to GO:0033574
  * Copied GO:0033574 to GO:0048545 with type OBO_REL:is_a
  * Assigned namespace "biological_process" to GO:0033574
* Populated new object GO:0043887 (macro)
  * Changed name of GO:0043887 from "<new term>" to "melibiose:sodium symporter activity"
  * Set definition of GO:0043887 to "Catalysis of the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: melibiose(out) + Na+(out) = melibiose(in) + Na+(in)."
  * Added definition dbxref PMID:1970646 to GO:0043887
  * Added definition dbxref UniProt:P02921 to GO:0043887
  * Added GO:0043887 to category gosubset_prok
  * Added synonym "MelB" to GO:0043887
  * Added synonym "melibiose carrier protein" to GO:0043887
  * Added synonym "melibiose permease" to GO:0043887
  * Changed synonym scope of GO:0043887 from "Related" to "Broad"
  * Added synonym "melibiose-Na+ symporter activity" to GO:0043887
  * Changed synonym scope of GO:0043887 from "Related" to "Exact"
  * Added synonym "melibiose-sodium symporter activity" to GO:0043887
  * Changed synonym scope of GO:0043887 from "Related" to "Exact"
  * Added synonym "melibiose/Na+ symporter activity" to GO:0043887
  * Changed synonym scope of GO:0043887 from "Related" to "Exact"
  * Added synonym "melibiose/sodium symporter activity" to GO:0043887
  * Changed synonym scope of GO:0043887 from "Related" to "Exact"
  * Added synonym "melibiose:Na+ symporter activity" to GO:0043887
  * Changed synonym scope of GO:0043887 from "Related" to "Exact"
  * Added synonym "Na+ (Li+)/melibiose symporter" to GO:0043887
  * Changed synonym scope of GO:0043887 from "Related" to "Exact"
  * Added synonym "Na+-melibiose symporter activity" to GO:0043887
  * Changed synonym scope of GO:0043887 from "Related" to "Exact"
  * Added synonym "Na+/melibiose symporter activity" to GO:0043887
  * Changed synonym scope of GO:0043887 from "Related" to "Exact"
  * Added synonym "Na+:melibiose symporter activity" to GO:0043887
  * Changed synonym scope of GO:0043887 from "Related" to "Exact"
  * Added synonym "sodium-melibiose symporter activity" to GO:0043887
  * Changed synonym scope of GO:0043887 from "Related" to "Exact"
  * Added synonym "sodium/melibiose symporter activity" to GO:0043887
  * Changed synonym scope of GO:0043887 from "Related" to "Exact"
  * Added synonym "sodium:melibiose symporter activity" to GO:0043887
  * Changed synonym scope of GO:0043887 from "Related" to "Exact"
  * Added synonym "thiomethylgalactoside permease II" to GO:0043887
  * Copied GO:0043887 to GO:0015487 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0043887
* Populated new object GO:0043888 (macro)
  * Changed name of GO:0043888 from "<new term>" to "(S)-2,3-di-O-geranylgeranylglyceryl phosphate synthase activity"
  * Added comment "This function is involved in archaeal lipid synthesis."
  * Set definition of GO:0043888 to "Catalysis of the transfer of a geranylgeranyl group from geranylgeranyl diphosphate to (S)-3-O-geranylgeranylglyceryl phosphate to form (S)-2,3-di-O-geranylgeranylglyceryl phosphate."
  * Added definition dbxref PMID:15356000 to GO:0043888
  * Added definition dbxref PMID:16494480 to GO:0043888
  * Added general dbxref EC:2.5.1.- to GO:0043888
  * Added GO:0043888 to category gosubset_prok
  * Added synonym "2,3-dGGGPS" to GO:0043888
  * Changed synonym scope of GO:0043888 from "Related" to "Exact"
  * Added synonym "DGGGP synthase" to GO:0043888
  * Changed synonym scope of GO:0043888 from "Related" to "Exact"
  * Added synonym "DGGGPS" to GO:0043888
  * Changed synonym scope of GO:0043888 from "Related" to "Exact"
  * Added synonym "UbiA" to GO:0043888
  * Copied GO:0043888 to GO:0004337 with type OBO_REL:is_a
  * Copied GO:0043888 to GO:0002094 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0043888
* Populated new object GO:0043889 (macro)
  * Changed name of GO:0043889 from "<new term>" to "(S)-3-O-geranylgeranylglyceryl phosphate activity"
  * Added comment "This function is involved in archaeal lipid synthesis."
  * Set definition of GO:0043889 to "Catalysis of the alkylation of the primary hydroxyl group in (S)-glyceryl phosphate by geranylgeranyl diphosphate to form (S)-3-O-geranylgeranylglyceryl phosphate."
  * Added definition dbxref PMID:12801917 to GO:0043889
  * Added definition dbxref PMID:17253090 to GO:0043889
  * Added definition dbxref PMID:8408023 to GO:0043889
  * Added GO:0043889 to category gosubset_prok
  * Added synonym "(S)-3-O-geranylgeranylglycerylphosphate activity" to GO:0043889
  * Changed synonym scope of GO:0043889 from "Related" to "Exact"
  * Added synonym "(S)-GGGP synthase" to GO:0043889
  * Changed synonym scope of GO:0043889 from "Related" to "Exact"
  * Added synonym "GGGP synthase" to GO:0043889
  * Changed synonym scope of GO:0043889 from "Related" to "Exact"
  * Added synonym "GGGPS" to GO:0043889
  * Changed synonym scope of GO:0043889 from "Related" to "Exact"
  * Copied GO:0043889 to GO:0004659 with type OBO_REL:is_a
  * Assigned namespace "molecular_function" to GO:0043889
* Changed definition of GO:0003896 from "Catalysis of the synthesis of short RNA primers for the Okazaki fragments on both DNA template strands at the replication fork. A DNA-directed RNA polymerase that forms a complex with alpha DNA polymerase." to "Catalysis of the synthesis of a short RNA primer on a DNA template, providing a free 3'-OH that can be extended by DNA-directed DNA polymerases. Catalyzed by a DNA-directed RNA polymerase that forms a complex with alpha DNA polymerase."
* Deleted definition dbxref ISBN:0198547684 from GO:0003896
* Added definition dbxref GOC:mah to GO:0003896
* Added definition dbxref ISBN:0716720094 to GO:0003896
* Added synonym "sucrose permease activity" to GO:0008515
* Changed comment from "Note that this function was formerly EC:1.18.99.1." to "Note that this function was formely EC 1.12.1.1, EC 1.12.7.1, EC 1.98.1.1, EC 1.18.3.1 and EC 1.18.99.1."
* Added synonym "1.18.99.1" to GO:0008901
* Added synonym "[Fe] hydrogenase" to GO:0008901
* Changed synonym scope of GO:0008901 from "Related" to "Exact"
* Added synonym "[Fe] hydrogenase gamma" to GO:0008901
* Added synonym "bidirectional hydrogenase" to GO:0008901
* Changed synonym scope of GO:0008901 from "Related" to "Broad"
* Added synonym "H2 oxidizing hydrogenase" to GO:0008901
* Changed synonym scope of GO:0008901 from "Related" to "Broad"
* Added synonym "H2 producing hydrogenase" to GO:0008901
* Changed synonym scope of GO:0008901 from "Related" to "Broad"
* Added synonym "hydrogen-lyase" to GO:0008901
* Changed synonym scope of GO:0008901 from "Related" to "Broad"
* Added synonym "hydrogen:ferredoxin oxidoreductase" to GO:0008901
* Changed synonym scope of GO:0008901 from "Related" to "Exact"
* Added synonym "hydrogenase (ferredoxin)" to GO:0008901
* Changed synonym scope of GO:0008901 from "Related" to "Exact"
* Added synonym "hydrogenase I" to GO:0008901
* Added synonym "hydrogenase II" to GO:0008901
* Added synonym "hydrogenlyase" to GO:0008901
* Changed synonym scope of GO:0008901 from "Related" to "Broad"
* Added synonym "uptake hydrogenase" to GO:0008901
* Changed synonym scope of GO:0008901 from "Related" to "Broad"
* Deleted GO:0009328 --OBO_REL:is_a--> GO:0005941
* Copied GO:0009328 to GO:0043234 with type OBO_REL:is_a
* Copied GO:0009328 to GO:0044444 with type OBO_REL:is_a
* Added GO:0015158 to category gosubset_prok
* Added synonym "raffinose permease" to GO:0015158
* Added GO:0015487 to category gosubset_prok
* Changed synonym scope of GO:0018492 from "Exact" to "Broad"
* Changed name of GO:0021512 from "spinal cord anterior-posterior patterning" to "spinal cord anterior/posterior patterning"
* Added synonym "spinal cord anterior-posterior patterning" to GO:0021512
* Changed synonym scope of GO:0021512 from "Related" to "Exact"
* Changed name of GO:0021513 from "spinal cord dorsal-ventral patterning" to "spinal cord dorsal/ventral patterning"
* Added synonym "spinal cord dorsal-ventral patterning" to GO:0021513
* Changed synonym scope of GO:0021513 from "Related" to "Exact"
* Changed name of GO:0021797 from "forebrain anterior-posterior pattern formation" to "forebrain anterior/posterior pattern formation"
* Added synonym "forebrain anterior-posterior pattern formation" to GO:0021797
* Changed synonym scope of GO:0021797 from "Related" to "Exact"
* Changed name of GO:0021798 from "forebrain dorsal-ventral pattern formation" to "forebrain dorsal/ventral pattern formation"
* Added synonym "forebrain dorsal-ventral pattern formation" to GO:0021798
* Changed synonym scope of GO:0021798 from "Related" to "Exact"
* Copied GO:0030337 to GO:0030234 with type OBO_REL:is_a
* Deleted GO:0031510 --OBO_REL:is_a--> GO:0005941
* Copied GO:0031510 to GO:0044428 with type OBO_REL:is_a
* Copied GO:0031510 to GO:0043234 with type OBO_REL:is_a
* Added synonym "Mex67-Mtr2 complex" to GO:0042272
* Changed synonym scope of GO:0042272 from "Related" to "Exact"
* Added synonym "NXF1-NXT1 complex" to GO:0042272
* Changed synonym scope of GO:0042272 from "Related" to "Exact"
* Added synonym "TAP-p15 complex" to GO:0042272
* Changed synonym scope of GO:0042272 from "Related" to "Exact"
* Deleted synonym "Okazaki fragment processing" from GO:0043137
* Deleted GO:0043137 --part_of--> GO:0006273
* Copied GO:0043137 to GO:0033567 with type part_of
* Changed synonym scope of GO:0043885 from "Exact" to "Broad"

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