Changes between Version 178 and Version 179 of MatrixProject


Ignore:
Timestamp:
Jan 4, 2013, 12:02:04 PM (9 years ago)
Author:
val_wood
Comment:

--

Legend:

Unmodified
Added
Removed
Modified
  • MatrixProject

    v178 v179  
    123123
    124124|| term ID 1 || term ID 2|| term name 2|| exceptions (everything in this column which is NOT a GO ID or "OR/AND" needs to be in brackets|| comments/checked in species ||
    125 ||GO:0006399|| GO:0006310 || DNA recombination || NO OVERLAP||S.p.; M.m||
    126 ||GO:0006399|| GO:0006281 || DNA repair|| NO OVERLAP||S.p.; M.m.||
    127 ||GO:0006399|| GO:0006260 || DNA replication || NO OVERLAP ||S.p.; M.m||
    128 ||GO:0006399|| GO:0030437 || ascospore formation || NO OVERLAP ||S.p. M.m (n/a)||
    129 ||GO:0006399|| GO:0005975 || carbohydrate metabolic process || NO OVERLAP ||S.p.; M.m||
    130 ||GO:0006399|| GO:0007155 || cell adhesion || NO OVERLAP ||S.p.; M.m.||
    131 ||GO:0006399|| GO:0006520 || cellular amino acid metabolic process || GO:0043039 (tRNA aminoacylation) OR (GO:0031071)) cysteine desulphurase ||S.p; M.m||
    132 ||GO:0006399|| GO:0070882 || cellular cell wall organization or biogenesis || NO OVERLAP ||S.p.; M.m (n/a)||
    133 ||GO:0006399|| GO:0016568 || chromatin modification || GO:0033588 (elongator complex) ||S.p (check this, is elongator still thought to be histone acetyltransferase???);M.m||
    134 ||GO:0006399|| GO:0051276 || chromosome organization  || GO:0033588 (elongator complex) ||S.p (check this, is elongator still thought to be histone acetyltransferase???); M.m||
    135 ||GO:0006399|| GO:0007059 || chromosome segregation || NO OVERLAP ||S.p; M.m.||
    136 ||GO:0006399|| GO:0051186 || cofactor metabolic process  || GO:0006777 (Mo-molybdopterin cofactor biosynthetic process)||S.p; M.m.||
    137 ||GO:0006399|| GO:0000747 || conjugation with cellular fusion  || NO OVERLAP ||S.p.; M.m (n/a)||
     125||GO:0006399||GO:0006310|| DNA recombination || NO OVERLAP||S.p.; M.m||
     126||GO:0006399||GO:0006281|| DNA repair|| NO OVERLAP||S.p.; M.m.||
     127||GO:0006399||GO:0006260|| DNA replication || NO OVERLAP ||S.p.; M.m||
     128||GO:0006399||GO:0030437|| ascospore formation || NO OVERLAP ||S.p. M.m {n/a}||
     129||GO:0006399||GO:0005975|| carbohydrate metabolic process || NO OVERLAP ||S.p.; M.m||
     130||GO:0006399||GO:0007155|| cell adhesion || NO OVERLAP ||S.p.; M.m.||
     131||GO:0006399||GO:0006520|| cellular amino acid metabolic process || GO:0043039 OR GO:0031071 (tRNA aminoacylation OR cysteine desulphurase ) ||S.p; M.m||
     132||GO:0006399||GO:0070882|| cellular cell wall organization or biogenesis || NO OVERLAP ||S.p.; M.m {n/a}||
     133||GO:0006399||GO:0016568|| chromatin modification || GO:0033588 (elongator complex) ||S.p {check this, is elongator still thought to be histone acetyltransferase???};M.m||
     134||GO:0006399||GO:0051276|| chromosome organization  || GO:0033588 (elongator complex) ||S.p {check this, is elongator still thought to be histone acetyltransferase???}; M.m||
     135||GO:0006399||GO:0007059|| chromosome segregation || NO OVERLAP ||S.p; M.m.||
     136||GO:0006399||GO:0051186|| cofactor metabolic process  || GO:0006777 (Mo-molybdopterin cofactor biosynthetic process)||S.p; M.m.||
     137||GO:0006399|| GO:0000747 || conjugation with cellular fusion  || NO OVERLAP ||S.p.; M.m {n/a}||
    138138||GO:0006399|| GO:0000910 || cytokinesis || NO OVERLAP ||S.p.; M.m||
    139 ||GO:0006399|| GO:0002181 || cytoplasmic translation  || GO:0043039 (tRNA aminoacylation) ||S.p.; M.m.||
    140 ||GO:0006399|| GO:0007010 || cytoskeleton organization  || NO OVERLAP || S.p; M.m.||
    141 ||GO:0006399|| GO:0007163 || establishment or maintenance of cell polarity  || NO OVERLAP ||S.p; M.m||
    142 ||GO:0006399|| GO:0006091 || generation of precursor metabolites and energy  || NO OVERLAP ||S.p; M.m.||
    143 ||GO:0006399|| GO:0006629 || lipid metabolic process  || NO OVERLAP ||S.p.; M.m.||
    144 ||GO:0006520|| GO:0016071 || mRNA metabolic process  || LOTS (add details later) ||S.p; M.m.||
    145 ||GO:0006520|| GO:0007126 || meiosis  || NO OVERLAP ||S.p; M.m||
    146 ||GO:0006520|| GO:0007005 || mitochondrion organization  || GO:0043039 (tRNA aminoacylation) ||S.p; M.m. (may need some more terms allowed in overlap)||
    147 ||GO:0006399|| GO:0071941 || nitrogen cycle metabolic process  || NO OVERLAP ||S.p; M.m.||
    148 ||GO:0006399|| GO:0055086 || nucleobase-containing small molecule metabolic process  || LOTS (add details later)||S.p.; M.m  includes GO:0008479 (queuine tRNA-ribosyltransferase activity) OR GO:0003924 (GTPase activity, specifically IPR004520)||
    149 ||GO:0006399|| GO:0006913 || nucleocytoplasmic transport  || NO OVERLAP ||S.p.; M.m||
    150 ||GO:0006399|| GO:0007031 || peroxisome organization  || NO OVERLAP ||S.p.; M.m||
    151 ||GO:0006399|| GO:0030163 || protein catabolic process  || NO OVERLAP ||S.p.; M.m||
    152 ||GO:0006399|| GO:0006461 || protein complex assembly  || NO OVERLAP ||S.p.; M.m (need to deal with protein tetramerization)||
    153 ||GO:0006399|| GO:0006457 || protein folding  || NO OVERLAP ||S.p.; M.m||
    154 ||GO:0006399|| GO:0006486 || protein glycosylation  || NO OVERLAP ||S.p.; M.m.||
    155 ||GO:0006399|| GO:0051604 || protein maturation  || NO OVERLAP ||S.p; M.m||
    156 ||GO:0006399|| GO:0070647 || protein modification by small protein conjugation or removal  || GO:0032447        (protein urmylation) ||S.p; M.m.||
    157 ||GO:0006399|| GO:0006605 || protein targeting  || NO OVERLAP ||S.p.; M.m||
    158 ||GO:0006399|| GO:0007346 || regulation of mitotic cell cycle  || NO OVERLAP ||S.p; M.m ||
    159 ||GO:0006399|| GO:0042254 || ribosome biogenesis  || LOTS (add details later) ||S.p.; M.m.||
    160 ||GO:0006399|| GO:0023052 || signaling  ||  NO OVERLAP ||S.p; M.m. ||
    161 ||GO:0006399|| GO:0006351 || transcription, DNA-dependent  ||  LOTS (add details later)||S.p.; M.m||
    162 ||GO:0006399|| GO:0055085 || transmembrane transport  || NO OVERLAP ||S.p.; M.m||
    163 ||GO:0006399|| GO:0007033 || vacuole organization  || NO OVERLAP ||S.p.; M.m.||
    164 ||GO:0006399|| GO:0016192 || vesicle-mediated transport  || NO OVERLAP ||S.p; M.m.||
    165 ||GO:0006399|| GO:0006766 || vitamin metabolic process  || NO OVERLAP ||S.p.; M.m||
    166 
    167 
     139||GO:0006399||GO:0002181|| cytoplasmic translation  || GO:0043039 (tRNA aminoacylation) ||S.p.; M.m.||
     140||GO:0006399||GO:0007010|| cytoskeleton organization  || NO OVERLAP || S.p; M.m.||
     141||GO:0006399||GO:0007163|| establishment or maintenance of cell polarity  || NO OVERLAP ||S.p; M.m||
     142||GO:0006399||GO:0006091|| generation of precursor metabolites and energy  || NO OVERLAP ||S.p; M.m.||
     143||GO:0006399||GO:0006629|| lipid metabolic process  || NO OVERLAP ||S.p.; M.m.||
     144||GO:0006520||GO:0016071|| mRNA metabolic process  || LATER ||S.p; M.m.||
     145||GO:0006520||GO:0007126|| meiosis  || NO OVERLAP ||S.p; M.m||
     146||GO:0006520||GO:0007005|| mitochondrion organization  || GO:0043039 (tRNA aminoacylation) ||S.p; M.m. {may need some more terms allowed in overlap}||
     147||GO:0006399||GO:0071941|| nitrogen cycle metabolic process  || NO OVERLAP ||S.p; M.m.||
     148||GO:0006399||GO:0055086|| nucleobase-containing small molecule metabolic process  || LATER||S.p.; M.m  includes GO:0008479 {queuine tRNA-ribosyltransferase activity}  GO:0003924 {GTPase activity, specifically IPR004520}||
     149||GO:0006399||GO:0006913|| nucleocytoplasmic transport  || NO OVERLAP ||S.p.; M.m||
     150||GO:0006399||GO:0007031|| peroxisome organization  || NO OVERLAP ||S.p.; M.m||
     151||GO:0006399||GO:0030163|| protein catabolic process  || NO OVERLAP ||S.p.; M.m||
     152||GO:0006399||GO:0006461|| protein complex assembly  || NO OVERLAP ||S.p.; M.m {need to deal with protein tetramerization}||
     153||GO:0006399||GO:0006457|| protein folding  || NO OVERLAP ||S.p.; M.m||
     154||GO:0006399||GO:0006486|| protein glycosylation  || NO OVERLAP ||S.p.; M.m.||
     155||GO:0006399||GO:0051604|| protein maturation  || NO OVERLAP ||S.p; M.m||
     156||GO:0006399||GO:0070647|| protein modification by small protein conjugation or removal  || GO:0032447  (protein urmylation) ||S.p; M.m.||
     157||GO:0006399||GO:0006605|| protein targeting  || NO OVERLAP ||S.p.; M.m||
     158||GO:0006399||GO:0007346|| regulation of mitotic cell cycle  || NO OVERLAP ||S.p; M.m ||
     159||GO:0006399||GO:0042254|| ribosome biogenesis  || LOTS (add details later) ||S.p.; M.m.||
     160||GO:0006399||GO:0023052|| signaling  ||  NO OVERLAP ||S.p; M.m. ||
     161||GO:0006399||GO:0006351|| transcription, DNA-dependent  ||  LATER ||S.p.; M.m||
     162||GO:0006399||GO:0055085|| transmembrane transport  || NO OVERLAP ||S.p.; M.m||
     163||GO:0006399||GO:0007033|| vacuole organization  || NO OVERLAP ||S.p.; M.m.||
     164||GO:0006399||GO:0016192|| vesicle-mediated transport  || NO OVERLAP ||S.p; M.m.||
     165||GO:0006399||GO:0006766|| vitamin metabolic process  || NO OVERLAP ||S.p.; M.m||
    168166
    169167 = tRNA metabolism annotation updates =
     
    172170
    173171
    174 
    175 
    176172== translation (Term 1) ==
    177173
    178174|| term ID 1 || term ID 2|| term name 2|| exceptions (everything in this column which is NOT a GO ID or "OR/AND" needs to be in brackets|| comments/checked in species ||
     175
    179176||GO:0006412|| GO:0006310 || DNA recombination || GO:0000018) regulation of translation (GO:0006417) regulation of DNA recombination  ||S.p.; M.m (2 ISO's from human to fix); S.c||
    180177||GO:0006412|| GO:0006281 || DNA repair || NO OVERLAP ||S.p.; S.c (4 KW mapping queries and 2 annotation queries); M.m 6 mappings ans 1 annotations to query||