Difference between revisions of "GSA-GO Linking Summary Tables"
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|128389||MAPK||GO:0004674 protein serine/threonine kinase activity||2||related||F||MAPK-dependent phosphorylation of LIN-1||GO:0006468 protein phosphorylation||G(kv)||Function term contained within a larger process concept.|||| | |128389||MAPK||GO:0004674 protein serine/threonine kinase activity||2||related||F||MAPK-dependent phosphorylation of LIN-1||GO:0006468 protein phosphorylation||G(kv)||Function term contained within a larger process concept.|||| | ||
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+ | |128389||phosphorylation||GO:0016310 phosphorylation||1||||P||MAPK-dependent phosphorylation of LIN-1||GO:0006468 protein phosphorylation||Y(kv)||Would be best to have the more specific protein phosphorylation term.|| | ||
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Revision as of 21:00, 9 September 2011
Links by GSA Paper ID
110338
GSA Paper ID | Linked Term in Abstract | Linked Term in GO | Instance in Abstract | Synonym match, if applicable | Ontology Aspect (P, F, C) | Larger Phrase in Abstract, if applicable | Best Possible GO Link, if different | Assessment of Existing Link (Y, N, G(ray area)) | Comments | Other Actions |
110338 | male meiosis | GO:0007140 male meiosis | 1 | P | Y(kv) | missed GO:0007143 female meiosis (kv) | ||||
110338 | chromosome segregation | GO:0007059 chromosome segregation | 1 | P | sex chromosome segregation | GO:0016321 female meiosis chromosome segregation, GO:0007060 male meiosis chromosome segregation | Y(kv) | Can we link out to more than one term? (kv) | Ontology development? (kv) | |
110338 | prophase | GO:0051324 prophase | 1 | P | meiotic prophase | GO:0007128 meiotic prophase I, GO:0007136 meiotic prophase II | Y(kv) | Not clear which meiotic prophase the authors mean and there is no general term for meiotic prophase. (kv) | Add meiotic prophase to GO? (kv) | |
110338 | apoptosis | GO:0006915 apoptosis | 1 | P | germ-line apoptosis | Y(kv) | Ontology development? - germline vs somatic, if mechanism is different (kv) | |||
110338 | signaling | GO:0023052 signaling | 1 | P | checkpoint signaling | GO:0072411 signal transduction involved in meiotic cell cycle checkpoint | Y(kv) | Maybe even GO:0072461 response to meiotic recombination checkpoint signal | ||
110338 | oogenesis | GO:0048477 oogenesis | 1 | P | Y(kv) | |||||
110338 | spermatogenesis | GO:0007283 spermatogenesis | 1 | P | Y(kv) | |||||
110338 | oogenesis | GO:0048477 oogenesis | 2 | P | Y(kv) | |||||
110338 | X chromosome | GO:0000805 X chromosome | 1 | C | Y(kv) | |||||
110338 | X chromosome | GO:0000805 X chromosome | 2 | C | Y(kv) | |||||
110338 | synapsis | GO:0007129 synapsis | 1 | P | self-synapsis | Y(kv) | Broaden GO definition? (kv) | |||
110338 | apoptosis | GO:0006915 apoptosis | 1 | P | Y(kv) | |||||
110338 | chromatin | GO:0000785 chromatin | 1 | C | GO:0000790 nuclear chromatin | Y(kv) | ||||
110338 | gene expression | GO:0010467 gene expression | 1 | P | X-linked gene expression | GO:0009299 mRNA transcription | Y(kv) | |||
110338 | chromatin | GO:0000785 chromatin | 2 | C | GO:0000790 nuclear chromatin | Y(kv) | ||||
110338 | signaling | GO:0023052 signaling | 2 | P | checkpoint signaling | GO:0072411 signal transduction involved in meiotic cell cycle checkpoint | Y(kv) | Maybe even GO:0072461 response to meiotic recombination checkpoint signal |
123323
GSA Paper ID | Linked Term in Abstract | Linked Term in GO | Instance in Abstract | Synonym match, if applicable | Ontology Aspect (P, F, C) | Larger Phrase in Abstract, if applicable | Best Possible GO Link, if different | Assessment of Existing Link (Y, N, G(ray area)) | Comments | Other Actions |
123323 | diapause | GO:0030431 sleep | 1 | related synonym | P | entry in the facultative dauer diapause stage | GO:0043053 dauer entry | N(kv) | ||
123323 | signaling | GO:0023052 signaling | 1 | P | DAF-2/Insulin receptor (InsR) signaling | GO:0008286 insulin receptor signaling pathway | Y(kv) | Maybe even GO:0035558 phosphatidylinositol 3-kinase cascade involved in insulin receptor signaling | ||
123323 | regulation | GO:0065007 biological regulation | 1 | broad synonym | P | developmental and physiological regulation events | GO:0050793 regulation of developmental process, GO:0050789 regulation of biological process | Y(kv) | regulation of physiological process is an exact synonym for regulation of biological process | |
123323 | signaling | GO:0023052 signaling | 2 | P | DAF-16/FOXO-dependent branch of the insulin-like signaling | GO:0008286 insulin receptor signaling pathway | Y(kv) | Maybe even GO:0035558 phosphatidylinositol 3-kinase cascade involved in insulin receptor signaling | ||
123323 | formation | GO:0009058 biosynthetic process | 1 | exact synonym | P | dauer formation | GO:0043053 dauer entry | N(kv) | ||
123323 | insulin-like growth factor | GO:0005159 insulin-like growth factor receptor binding | 1 | narrow synonym | F | insulin/insulin-like growth factor (IGF) | Y(kv) |
123992
GSA Paper ID | Linked Term in Abstract | Linked Term in GO | Instance in Abstract | Synonym match, if applicable | Ontology Aspect (P, F, C) | Larger Phrase in Abstract, if applicable | Best Possible GO Link, if different | Assessment of Existing Link (Y, N, G(ray area)) | Comments | Other Actions |
123992 | cell | GO:0005623 cell | 1 | C | L3 cell fates | Y(kv) | Link out to life stage for 'L3'? Also, see below. | |||
123992 | cell | GO:0005623 cell | 2 | C | L3 cell fate | Y(kv) | Link out to life stage for 'L3'? Also, see below. | |||
123992 | formation | GO:0009058 biosynthetic process | 1 | exact synonym | P | dauer larva formation | GO:0043053 dauer entry or GO:0040024 dauer larval development | N(kv) | ||
123992 | formation | GO:0009058 biosynthetic process | 2 | exact synonym | P | dauer formation decision | GO:0043053 dauer entry | N(kv)) | ||
123992 | cell | GO:0005623 cell | 3 | C | regulate stage-specific cell fate decisions | G(kv) | This link is not incorrect, but like above, 'cell' in this context is part of a larger concept of cell fate specification. There is a GO term, GO:0001708 cell fate specification. Would it be appropriate to link that term instead? | |||
123992 | formation | GO:0009058 biosynthetic process | 3 | exact synonym | P | regulate dauer formation | GO:0043053 dauer entry | N(kv) | Need a new regulation term in GO for dauer entry? |
128389
GSA Paper ID | Linked Term in Abstract | Linked Term in GO | Instance in Abstract | Synonym match, if applicable | Ontology Aspect (P, F, C) | Larger Phrase in Abstract, if applicable | Best Possible GO Link, if different | Assessment of Existing Link (Y, N, G(ray area)) | Comments | Other Actions | |
128389 | ligand | GO:0005488 binding | 1 | narrow synonym | F | GO:0005102 receptor binding or GO:0005112 Notch binding | Y(kv) | ||||
128389 | cell | GO:0005623 cell | 1 | C | vulval precursor cell (VPC) fate patterning | GO:0072327 vulval cell fate specification | G(kv) | Cell in this context is part of a more specific biological process term. | |||
128389 | EGFR | GO:0005006 epidermal growth factor-activated receptor activity | 1 | exact | F | activation of EGFR/Ras/MAPK by the inductive signal | GO:0035559 MAPKKK cascade involved in epidermal growth factor receptor signaling | G(kv) | Function term contained within a process is the only link; we should link to the process, too. Note also that we could link to GO:0003924 GTPase activity for Ras. | ||
128389 | MAPK | GO:0004674 protein serine/threonine kinase activity | 1 | related | F | activation of EGFR/Ras/MAPK by the inductive signal | GO:0035559 MAPKKK cascade involved in epidermal growth factor receptor signaling | G(kv) | Function term contained within a process is the only link; we should link to the process, too. Note also that we could link to GO:0003924 GTPase activity for Ras. | ||
128389 | vulval development | GO:0040025 vulval development | 1 | P | Y(kv) | ||||||
128389 | signaling | GO:0023052 signaling | 1 | P | lateral signaling | GO:0046331 lateral inhibition | Y(kv) | Add synonym to GO. | |||
128389 | MAPK | GO:0004674 protein serine/threonine kinase activity | 2 | related | F | MAPK-dependent phosphorylation of LIN-1 | GO:0006468 protein phosphorylation | G(kv) | Function term contained within a larger process concept. | ||
128389 | phosphorylation | GO:0016310 phosphorylation | 1 | P | MAPK-dependent phosphorylation of LIN-1 | GO:0006468 protein phosphorylation | Y(kv) | Would be best to have the more specific protein phosphorylation term. |