Mapping file for maize terms WITH annotation in MaizeGDB

[Mary Polacco]

Katica,

Let me know if this format is OK. I am open to any suggestions on anything
else here.

I will send on soon the ones where we have no annotation yet in MaizeGDB.
Where there was an (in sensu), I used the PO ID for the appropriate match in
maize and picking the sensu ones as appropriate. The accessions listed in
the mapping file are being placed into MaizeGDB to be used for providing
AMIGO with the gene associations.

Some notes.

A.  there are a few terms where the mapping was not precise; I have checked
with Leszek, and would like to propose that we consider adding new terms for
these cases.

MaizeGDB: 106161 tillers > PO: axillary shoot ; PO:0006343
**preferred would be mapping to non-existent term: basal axillary shoot

MaizeGDB: 15809 pollen > PO: male gametophyte ; PO:0020091
** pollen is a parent term for male gametophyte

MaizeGDB: 45980 leaf cuticle > PO: leaf epidermis ; PO:0006016
**strictly speaking, leaf cuticle is not a 'cellular' anatomical feature,
but is considered that way in usage.

MaizeGDB: 58047 stalk > PO: stem ; PO:0009047
MaizeGDB: 58047 stalk >> PO: leaf sheath ; PO:0020104
**while stem is the major component of maize stalk, it also is composed of
leaf sheath

MaizeGDB: 64474 mid rib > PO: mid vein ; PO:0020139
**mid rib includes more tissue that just the mid vein, but at this time I am
only mapping to mid vein


B. I changed a several terms in MaizeGDB to be equivalent to those in PO:
 culm node to node
 sheath to leaf sheath
 leaf blade to leaf lamina
  etc
  

C. in addition to Part A above, some terms in MaizeGDB should remain
different, but be 'synonymized' with the PO term:
 MaizeGDB: 11089 kernel > PO: fruit ; PO:0009001
 MaizeGDB: 24759 cob > PO: central spike of ear ; PO:0006505
 MaizeGDB: 24742 husk > PO: infloresence bract of ear ; PO:0006337
  

-mary

++++++++++++++++++++++++++++++++++++++++++++++++++
 

 

MaizeGDB: 79057 shoot apical meristem > PO: shoot apical meristem ;
PO:0020148

MaizeGDB: 64470 node > PO: node ; PO:0020141

MaizeGDB: 64474 mid rib > PO: mid vein ; PO:0020139

MaizeGDB: 1861 leaf > PO: leaf ; PO:0009025

MaizeGDB: 24738 leaf apex > PO: leaf apex ; PO:0020137

MaizeGDB: 24736 auricle > PO: auricle ; PO:0020106

MaizeGDB: 45980 leaf cuticle > PO: leaf epidermis ; PO:0006016

MaizeGDB: 104000 leaf epidermis > PO: leaf epidermis ; PO:0006016

MaizeGDB: 131140 guard cell > PO: guard cell ; PO:0000293

MaizeGDB: 64473 ligule > PO: ligule ; PO:0020105

MaizeGDB: 13810 leaf sheath > PO: leaf sheath ; PO:0020104

MaizeGDB: 894644 leaf base > PO: leaf base ; PO:0020040

MaizeGDB: 24740 leaf lamina > PO: leaf lamina ; PO:0020039

MaizeGDB: 65488 leaf margin > PO: leaf margin ; PO:0020128

MaizeGDB: 11056 coleoptile > PO: coleoptile ; PO:0020033

MaizeGDB: 58047 stalk > PO: stem ; PO:0009047

MaizeGDB: 58047 stalk > PO: leaf sheath ; PO:0020104

MaizeGDB: 60674 stem > PO: stem ; PO:0009047

 

MaizeGDB: 106160 shoot > PO: shoot ; PO:0009006

MaizeGDB: 24734 root > PO: root ; PO:0009005

MaizeGDB: 106152 primary root > PO: primary root ; PO:0020127

MaizeGDB: 40516 root cap > PO: root cap ; PO:0020123

MaizeGDB: 894753 nodal root > PO: nodal root ; PO:0003005

MaizeGDB: 100045 root hair > PO: root hair ; PO:0000256

 

MaizeGDB: 100180 inflorescence > PO: inflorescence ; PO:0009049

MaizeGDB: 64471 glume > PO: glume ; PO:0009039

 

MaizeGDB: 24979 ear > PO: ear ; PO:0020136

MaizeGDB: 11089 kernel > PO: fruit ; PO:0009001

MaizeGDB: 13807 pericarp > PO: pericarp ; PO:0009084

MaizeGDB: 1860 aleurone > PO: aleurone layer ; PO:000536

MaizeGDB: 11053 plumule > PO: plumule ; PO:0020032

MaizeGDB: 894610 cotyledon > PO: cotyledon ; PO:0020030

MaizeGDB: 11087 embryo > PO: embryo ; PO:0009009

MaizeGDB: 86197 embryo axis > PO: embryo axis ; PO:0019018

MaizeGDB: 15814 endosperm > PO: endosperm ; PO:0009089

MaizeGDB: 11042 scutellum > PO: scutellum ; PO:0020110

MaizeGDB: 24759 cob > PO: central spike of ear ; PO:0006505

MaizeGDB: 167982 glume of ear spikelet > PO: glume of ear spikelet ;
PO:0006367

MaizeGDB: 24742 husk > PO: infloresence bract of ear ; PO:0006337

MaizeGDB: 64631 female gametophyte > PO: female gametophyte ; PO:0020092

MaizeGDB: 24753 silk > PO: silk ; PO:0006488

 

MaizeGDB: 24990 tassel > PO: tassel ; PO:0020126

MaizeGDB: 64630 male gametophyte > PO: male gametophyte ; PO:0020091

MaizeGDB: 15809 pollen > PO: male gametophyte ; PO:0020091

MaizeGDB: 24749 anther > PO: anther ; PO:0006473

MaizeGDB: 24746 glume of tassel spikelet > PO: glume of tassel spikelet ;
PO:0006368

MaizeGDB: 167379 central spike of tassel > PO: central spike of tassel ;
PO:0006324

 

 

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