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The BiGG Models website server
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Different IDs for same compound #274

Open willigott opened 6 years ago

willigott commented 6 years ago

Description of the issue

The compounds have the identical annotation but different IDs. This can then also lead to the problem of having different reaction IDs for identical reactions (examples can be found in #280). It is also partly caused by #271 which can make it hard to identify those duplicates as not all compounds are annotated (see e.g. http://bigg.ucsd.edu/universal/metabolites/C02712 and http://bigg.ucsd.edu/universal/metabolites/acmet)

Page

http://bigg.ucsd.edu/universal/metabolites/mm http://bigg.ucsd.edu/universal/metabolites/HC00900

http://bigg.ucsd.edu/universal/metabolites/fdxo_2_2 http://bigg.ucsd.edu/universal/metabolites/fdxox

http://bigg.ucsd.edu/universal/metabolites/scys__L http://bigg.ucsd.edu/universal/metabolites/slfcys

http://bigg.ucsd.edu/universal/metabolites/HC01712 http://bigg.ucsd.edu/universal/metabolites/S_gtrdhdlp

http://bigg.ucsd.edu/universal/metabolites/stys http://bigg.ucsd.edu/universal/metabolites/stchs

http://bigg.ucsd.edu/universal/metabolites/HC01444 http://bigg.ucsd.edu/universal/metabolites/ggl

http://bigg.ucsd.edu/universal/metabolites/2aeppn http://bigg.ucsd.edu/universal/metabolites/2ameph

http://bigg.ucsd.edu/universal/metabolites/glc__bD http://bigg.ucsd.edu/universal/metabolites/glc__D

http://bigg.ucsd.edu/universal/metabolites/melib http://bigg.ucsd.edu/universal/metabolites/6dg

http://bigg.ucsd.edu/universal/metabolites/2kmb http://bigg.ucsd.edu/universal/metabolites/4met2obut

http://bigg.ucsd.edu/universal/metabolites/f6p_B http://bigg.ucsd.edu/universal/metabolites/f6p

http://bigg.ucsd.edu/universal/metabolites/im4act http://bigg.ucsd.edu/universal/metabolites/imzacd

http://bigg.ucsd.edu/universal/metabolites/im4ac http://bigg.ucsd.edu/universal/metabolites/imzac

zakandrewking commented 5 years ago

latest list:

MetaNetX ID: MNXM2; BiGG IDs: h2o, oh1
MetaNetX ID: MNXM15; BiGG IDs: nh3, nh4
MetaNetX ID: MNXM42; BiGG IDs: CE1787, CE5868, asp__L
MetaNetX ID: MNXM99; BiGG IDs: Glc_aD, glc__aD
MetaNetX ID: MNXM149; BiGG IDs: HC02172, zn2
MetaNetX ID: MNXM272; BiGG IDs: stcoa, strcoa
MetaNetX ID: MNXM276; BiGG IDs: 2kmb, 4met2obut
MetaNetX ID: MNXM323; BiGG IDs: HC01501, tsul
MetaNetX ID: MNXM341; BiGG IDs: glcn, glcn__D
MetaNetX ID: MNXM409; BiGG IDs: 2h3k5m, hkmpp
MetaNetX ID: MNXM446; BiGG IDs: 3hbcoa, 3hbycoa
MetaNetX ID: MNXM475; BiGG IDs: 2h3opp, 2h3oppan, hop
MetaNetX ID: MNXM491; BiGG IDs: inoshp, minohp
MetaNetX ID: MNXM626; BiGG IDs: 4tmeabutn, gbbtn
MetaNetX ID: MNXM642; BiGG IDs: dd2coa, trans_dd2coa
MetaNetX ID: MNXM645; BiGG IDs: 34dhpacet, 34dhpha
MetaNetX ID: MNXM650; BiGG IDs: pp2coa, prpncoa
MetaNetX ID: MNXM672; BiGG IDs: dscl, shcl
MetaNetX ID: MNXM690; BiGG IDs: CE2754, HC02187
MetaNetX ID: MNXM801; BiGG IDs: abt, abt__L
MetaNetX ID: MNXM854; BiGG IDs: 5d4dglcr, 5dh4dglc
MetaNetX ID: MNXM863; BiGG IDs: scl, srch
MetaNetX ID: MNXM920; BiGG IDs: b124tc, hacon_C
MetaNetX ID: MNXM1080; BiGG IDs: galct__D, galctr__D
MetaNetX ID: MNXM1137; BiGG IDs: 5hiu, C11821
MetaNetX ID: MNXM1246; BiGG IDs: rbflvrd, ribflvRD
MetaNetX ID: MNXM1330; BiGG IDs: im4ac, imzac
MetaNetX ID: MNXM1503; BiGG IDs: stchs, stys
MetaNetX ID: MNXM1572; BiGG IDs: HC00900, mm, mmal
MetaNetX ID: MNXM1630; BiGG IDs: isetac, istnt
MetaNetX ID: MNXM1680; BiGG IDs: HC00822, chitob
MetaNetX ID: MNXM1745; BiGG IDs: im4act, imzacd
MetaNetX ID: MNXM1748; BiGG IDs: HC00832, fcl__L
MetaNetX ID: MNXM1805; BiGG IDs: 5houdic, houdic
MetaNetX ID: MNXM1855; BiGG IDs: 2hxmp, 2hymeph
MetaNetX ID: MNXM1872; BiGG IDs: acamoxm, nal2a6o
MetaNetX ID: MNXM1949; BiGG IDs: sula, sulfac
MetaNetX ID: MNXM2212; BiGG IDs: aacald, amacald
MetaNetX ID: MNXM2246; BiGG IDs: metox, metsox_S__L
MetaNetX ID: MNXM2428; BiGG IDs: scys__L, slfcys
MetaNetX ID: MNXM2495; BiGG IDs: 6ampenc, 6apa
MetaNetX ID: MNXM2782; BiGG IDs: 3mtp, C08276, mtpp
MetaNetX ID: MNXM3059; BiGG IDs: HC01231, ptcys
MetaNetX ID: MNXM3710; BiGG IDs: HC00695, sdhlam
MetaNetX ID: MNXM4485; BiGG IDs: macchitppdol, mpdol
MetaNetX ID: MNXM4815; BiGG IDs: HC00682, adhlam
MetaNetX ID: MNXM4968; BiGG IDs: 2hb, 2hbut
MetaNetX ID: MNXM5589; BiGG IDs: 3mbdhl, HC01377
MetaNetX ID: MNXM6292; BiGG IDs: 56iqcrbxlt, CE1562
MetaNetX ID: MNXM7343; BiGG IDs: eths, ethso3
MetaNetX ID: MNXM8669; BiGG IDs: gly_phe__L, glyphe
MetaNetX ID: MNXM9096; BiGG IDs: 2mbdhl, HC01376
MetaNetX ID: MNXM11353; BiGG IDs: chit6p, chtbs6p
MetaNetX ID: MNXM12480; BiGG IDs: C01601, nona
MetaNetX ID: MNXM15786; BiGG IDs: CE5866, ala_L_leu__L
MetaNetX ID: MNXM31169; BiGG IDs: 4h3npac, CE1957
MetaNetX ID: MNXM56612; BiGG IDs: HC00576, hcarn
MetaNetX ID: MNXM58018; BiGG IDs: HC00229, isomal
MetaNetX ID: MNXM81222; BiGG IDs: HC01712, S_gtrdhdlp
MetaNetX ID: MNXM89689; BiGG IDs: orn, orn__L
MetaNetX ID: MNXM90341; BiGG IDs: 3hibutcoa, hibcoa
MetaNetX ID: MNXM126241; BiGG IDs: gly_leu__L, glyleu
MetaNetX ID: MNXM145761; BiGG IDs: codscl8x, copre8
MetaNetX ID: MNXM162233; BiGG IDs: uacgala, udpacgal
MetaNetX ID: MNXM162359; BiGG IDs: HC01361, dhnpt
MetaNetX ID: MNXM722796; BiGG IDs: CE5656, lipoamp
zakandrewking commented 5 years ago

@jmcconn this is a good one to work on, probably related to Recon3D