Dead definition cross references - Drosophila terms

[pgaudet]

Hi @hattrill

Can you provide PMIDs (or other sources) for the following fly terms? These links are dead.

• GO:0045498 | sex comb development | The process whose specific outcome is the progression of the sex comb over time, from its formation to the mature structure. The sex combs are the male specific chaetae located on the prothoracic tarsal segment of the prothoracic leg. | http:https://fly.ebi.ac.uk
• GO:0007469 | antennal development | The process whose specific outcome is the progression of the antenna over time, from its formation to the mature structure. The antenna are the sensory structures on the head that are capable of detecting various environmental stimuli. | http:https://fly.ebi.ac.uk/.bin/cvreport2?id=FBcv0004526
• GO:0008056 | ocellus development | The process whose specific outcome is the progression of the ocellus over time, from its formation to the mature structure. The ocellus is a simple visual organ of insects. | http:https://fly.ebi.ac.uk/.bin/cvreport2?id=FBcv0004540
• GO:0048816 | ocellus morphogenesis | The process in which the anatomical structures of the ocellus are generated and organized. The ocellus is a simple visual organ of insects. | http:https://fly.ebi.ac.uk/.bin/cvreport2?id=FBcv0004540
• GO:0008058 | ocellus pigment granule organization | A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of intracellular pigment storage granules in the ocellus. | http:https://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm
• GO:0007366 | periodic partitioning by pair rule gene | Allocation of cells to parasegments in the embryo, through the action of overlapping series of pair rule gene activities. | http:https://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm, ISBN:0632030488, ISBN:0879694238
• GO:0007367 | segment polarity determination | Division of the 14 parasegments of the embryo into anterior and posterior compartments; exemplified by the actions of the segment polarity gene products. | http:https://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm, ISBN:0632030488, ISBN:0879694238
• GO:0007351 | tripartite regional subdivision | Subdivision of the embryo along the anterior/posterior axis into anterior, posterior and terminal regions. | http:https://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm, ISBN:0879694238
• GO:0007359 | posterior abdomen determination | The regionalization process in which the posterior (abdominal) regions of the embryo are specified by the gap genes. | http:https://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm, ISBN:0879694238
• GO:0007350 | blastoderm segmentation | The hierarchical steps resulting in the progressive subdivision of the anterior/posterior axis of the embryo. | http:https://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm, ISBN:0879694238
• GO:0007354 | zygotic determination of anterior/posterior axis, embryo | The specification of the anterior/posterior axis of the embryo by products of genes expressed in the zygote; exemplified in insects by the gap genes, pair rule genes and segment polarity gene cascade. | http:https://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm, ISBN:0879694238
• GO:0007355 | anterior region determination | Specification of the anterior (head and thoracic segments) of the embryo by the gap genes; exemplified in insects by the actions of hunchback gene product. | http:https://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm, ISBN:0879694238
• GO:0007356 | thorax and anterior abdomen determination | Specification of the central (trunk) regions of the embryo by the gap genes; exemplified in insects by the actions of the Kruppel gene product. | http:https://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm, ISBN:0879694238
• GO:0007362 | terminal region determination | Specification of the terminal regions (the two non-segmented ends) of the embryo by the gap genes; exemplified in insects by the actions of huckebein and tailless gene products. | http:https://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm, ISBN:0879694238
• GO:0007379 | segment specification | The process in which segments assume individual identities; exemplified in insects by the actions of the products of the homeotic genes. | http:https://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm, ISBN:0879694238
• GO:0007386 | compartment pattern specification | The regionalization process in which embryonic segments are divided into compartments that will result in differences in cell differentiation. | http:https://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm, ISBN:0879694238
• GO:0007387 | anterior compartment pattern formation | The process giving rise to specification of cell identity in the anterior compartments of the segmented embryo. | http:https://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm, ISBN:0879694238
• GO:0007388 | posterior compartment specification | The process involved in the specification of cell identity in the posterior compartments of the segmented embryo. | http:https://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm, ISBN:0879694238
• GO:0008358 | maternal determination of anterior/posterior axis, embryo | The specification of the anterior/posterior axis of the embryo by gradients of maternally-transcribed gene products; exemplified in insects by the morphogens, bicoid and nanos. | http:https://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm, ISBN:0879694238
• GO:0008595 | anterior/posterior axis specification, embryo | The specification of the anterior/posterior axis of the embryo by the products of genes expressed maternally and genes expressed in the zygote. | http:https://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm, ISBN:0879694238
• GO:0035210 | prepupal development | The process whose specific outcome is the progression of the prepupa over time, from its formation to the mature structure. The prepupal stage is a life stage interposed between the larval and the pupal stages in insects that undergo a complete metamorphosis. The start of the pre-pupal stage is marked by pupariation, and the end is marked by pupation. | http:https://sdb.bio.purdue.edu/fly/aimain/1adult.htm
• GO:0046529 | imaginal disc fusion, thorax closure | The joining of the parts of the wing imaginal discs, giving rise to the adult thorax. | http:https://sdb.bio.purdue.edu/fly/gene/fos4.htm
• GO:0035165 | embryonic crystal cell differentiation | The process in which an embryonic mesoderm-derived hemocyte precursor cell acquires the specialized features of a crystal cell. Crystal cells are a class of cells that contain crystalline inclusions and are involved in the melanization of pathogenic material in the hemolymph. | http:https://sdb.bio.purdue.edu/fly/gene/serpent3.htm
• GO:0035170 | lymph gland crystal cell differentiation | The process in which a relatively unspecialized larval lymph gland-derived hemocyte precursor cell acquires the specialized features of a crystal cell. Crystal cells are a class of cells that contain crystalline inclusions and are involved in the melanization of pathogenic material in the hemolymph. | http:https://sdb.bio.purdue.edu/fly/gene/serpent3.htm
• GO:0042688 | crystal cell differentiation | The process in which a hemocyte precursor cell acquires the characteristics of a crystal cell, a class of cells that contain crystalline inclusions and are involved in the melanization of pathogenic material in the hemolymph. | http:https://sdb.bio.purdue.edu/fly/gene/serpent3.htm

Thanks, Pascale

[cmungall]

We should use the relevant anatomy ontology (Uberon or FBbt depending on range, not FBcv) as reference for trivial development compositional terms, but we should pay attention to species-specificity. E.g.

GO:0007354 | zygotic determination of anterior/posterior axis, embryo | The specification of the anterior/posterior axis of the embryo by products of genes expressed in the zygote; exemplified in insects by the gap genes, pair rule genes and segment polarity gene cascade http:https://fly.ebi.ac.uk/allied-data/lk/interactive-fly/aimain/1aahome.htm, ISBN:0879694238

This is one of these GO terms that are a bit confused about their taxonomic scope. I'm guessing it was originally added for fly annotation and progressively generalized. It's currently used for mammalian genes, so it's not appropriate to have two drosophila specific references for such a broad fuzzy term.