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Fix: remove nonassociated genes #965

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2 changes: 1 addition & 1 deletion data/testResults/README.md
Original file line number Diff line number Diff line change
Expand Up @@ -4,7 +4,7 @@ The file here contains results from the [MACAW](https://github.com/Devlin-Moyer/

The test results shown here were obtained by the GitHub Actions run in:

- **PR #960** (MACAW)
- **PR #965** (MACAW)
- **PR #962** (gene essentiality)

The results will be updated by any subsequent pull request. Summary results are shown as a comment in the corresponding pull request.
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14 changes: 1 addition & 13 deletions model/Human-GEM.yml
Original file line number Diff line number Diff line change
Expand Up @@ -150992,7 +150992,7 @@
- MAM01619e: 1
- lower_bound: -1000
- upper_bound: 1000
- gene_reaction_rule: "ENSG00000130821"
- gene_reaction_rule: "ENSG00000130821 or ENSG00000165449"
- rxnFrom: "HMRdatabase"
- references: "PMID:11165387;PMID:12110547;PMID:12145274;PMID:15918910;PMID:3896131;PMID:9386672"
- subsystem:
Expand Down Expand Up @@ -261846,9 +261846,6 @@
- !!omap
- id: "ENSG00000102575"
- name: "ACP5"
- !!omap
- id: "ENSG00000102595"
- name: "UGGT2"
- !!omap
- id: "ENSG00000102699"
- name: "PARP4"
Expand Down Expand Up @@ -264177,9 +264174,6 @@
- !!omap
- id: "ENSG00000136720"
- name: "HS6ST1"
- !!omap
- id: "ENSG00000136731"
- name: "UGGT1"
- !!omap
- id: "ENSG00000136750"
- name: "GAD2"
Expand Down Expand Up @@ -265023,9 +265017,6 @@
- !!omap
- id: "ENSG00000147160"
- name: "AWAT2"
- !!omap
- id: "ENSG00000147162"
- name: "OGT"
- !!omap
- id: "ENSG00000147224"
- name: "PRPS1"
Expand Down Expand Up @@ -267234,9 +267225,6 @@
- !!omap
- id: "ENSG00000175567"
- name: "UCP2"
- !!omap
- id: "ENSG00000175711"
- name: "B3GNTL1"
- !!omap
- id: "ENSG00000175806"
- name: "MSRA"
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4 changes: 0 additions & 4 deletions model/genes.tsv
Original file line number Diff line number Diff line change
Expand Up @@ -524,7 +524,6 @@
"ENSG00000102383" "ENST00000373367;ENST00000482827;ENST00000541184" "ENSP00000362465;ENSP00000445420" "Q96MV8" "ZDHHC15" "158866" "zinc finger DHHC-type palmitoyltransferase 15" "DHHC15;FLJ31812;MRX91" "Golgi apparatus;Nucleus;Cytosol" "SwissProt;CellAtlas"
"ENSG00000102393" "ENST00000674142;ENST00000468823;ENST00000493905;ENST00000218516;ENST00000466414;ENST00000479445;ENST00000649178;ENST00000675968;ENST00000676156;ENST00000675592;ENST00000676372;ENST00000674127;ENST00000675799;ENST00000486121;ENST00000480513;ENST00000674634" "ENSP00000476935;ENSP00000218516;ENSP00000498186;ENSP00000501730;ENSP00000502239;ENSP00000502805;ENSP00000501044;ENSP00000502661;ENSP00000501124;ENSP00000497055;ENSP00000502629" "P06280" "GLA" "2717" "galactosidase alpha" "GALA" "Lysosome" "SwissProt"
"ENSG00000102575" "ENST00000648477;ENST00000218758;ENST00000412435;ENST00000590420;ENST00000588625;ENST00000588524;ENST00000590832;ENST00000588079;ENST00000589792;ENST00000649386;ENST00000591319;ENST00000592828;ENST00000592659" "ENSP00000496973;ENSP00000218758;ENSP00000392374;ENSP00000468509;ENSP00000465127;ENSP00000468685;ENSP00000497140;ENSP00000464831;ENSP00000468767;ENSP00000465498" "P13686" "ACP5" "54" "acid phosphatase 5, tartrate resistant" "HPAP;TRAP" "Cytosol;Lysosome" "SwissProt;CellAtlas"
"ENSG00000102595" "ENST00000376747;ENST00000462472;ENST00000476866;ENST00000491509;ENST00000463054;ENST00000465196;ENST00000461329;ENST00000467305;ENST00000376712;ENST00000376714;ENST00000621375;ENST00000397618;ENST00000638479" "ENSP00000365938;ENSP00000365902;ENSP00000365904;ENSP00000482021;ENSP00000380743;ENSP00000491729" "Q9NYU1" "UGGT2" "55757" "UDP-glucose glycoprotein glucosyltransferase 2" "FLJ10873;FLJ11485;HUGT2;MGC117360;MGC150689;MGC87276;UGCGL2" "Endoplasmic reticulum" "SwissProt"
"ENSG00000102699" "ENST00000381989;ENST00000484989;ENST00000480576" "ENSP00000371419" "Q9UKK3" "PARP4" "143" "poly(ADP-ribose) polymerase family member 4" "ADPRTL1;ARTD4;p193;VAULT3;VPARP;VWA5C" "Nucleus;Cytosol" "SwissProt;CellAtlas"
"ENSG00000102743" "ENST00000478827;ENST00000338625;ENST00000417731;ENST00000470509" "ENSP00000342267;ENSP00000415826;ENSP00000431429" "Q9Y619" "SLC25A15" "10166" "solute carrier family 25 member 15" "D13S327;HHH;ORC1;ORNT1" "Inner mitochondria" "SwissProt"
"ENSG00000102780" "ENST00000337343;ENST00000261491;ENST00000611224;ENST00000628433;ENST00000627777;ENST00000626247;ENST00000536612;ENST00000498255;ENST00000489851;ENST00000379274" "ENSP00000337572;ENSP00000261491;ENSP00000482250;ENSP00000485809;ENSP00000486838;ENSP00000486329;ENSP00000445114;ENSP00000368576" "Q86XP1" "DGKH" "160851" "diacylglycerol kinase eta" "DGKeta" "Cytosol" "SwissProt"
Expand Down Expand Up @@ -1292,7 +1291,6 @@
"ENSG00000136628" "ENST00000366923;ENST00000468487;ENST00000485821;ENST00000609181;ENST00000464052;ENST00000477030" "ENSP00000355890;ENSP00000477245;ENSP00000477493" "P07814" "EPRS1" "2058" "glutamyl-prolyl-tRNA synthetase 1" "EARS;EPRS;GLUPRORS;PARS;QARS;QPRS" "Cytosol" "SwissProt;CellAtlas"
"ENSG00000136699" "ENST00000431183;ENST00000454468;ENST00000412570;ENST00000433118;ENST00000351288;ENST00000680298;ENST00000491128;ENST00000482171;ENST00000439886;ENST00000409031;ENST00000680401;ENST00000680679;ENST00000680810;ENST00000680987;ENST00000457039;ENST00000491319;ENST00000449159;ENST00000461187;ENST00000430682;ENST00000451542;ENST00000435455;ENST00000680196;ENST00000473720;ENST00000455548;ENST00000439029;ENST00000681660;ENST00000441135" "ENSP00000405187;ENSP00000407591;ENSP00000403002;ENSP00000397278;ENSP00000259217;ENSP00000506463;ENSP00000401648;ENSP00000386531;ENSP00000506367;ENSP00000505716;ENSP00000505271;ENSP00000506346;ENSP00000397078;ENSP00000403915;ENSP00000406325;ENSP00000405363;ENSP00000393791;ENSP00000505151;ENSP00000416208;ENSP00000406458" "Q9NXE4" "SMPD4" "55627" "sphingomyelin phosphodiesterase 4" "FLJ20297;FLJ20756;KIAA1418;NET13;nSMase-3;NSMASE3" "Endoplasmic reticulum;Golgi apparatus;Nucleus;Cytosol" "SwissProt;CellAtlas"
"ENSG00000136720" "ENST00000469019;ENST00000259241;ENST00000463963;ENST00000494089" "ENSP00000259241" "O60243" "HS6ST1" "9394" "heparan sulfate 6-O-sulfotransferase 1" "HS6ST" "Nucleus" "CellAtlas"
"ENSG00000136731" "ENST00000430075;ENST00000438277;ENST00000376723;ENST00000259253;ENST00000488439;ENST00000418197;ENST00000465836" "ENSP00000400426;ENSP00000392701;ENSP00000365913;ENSP00000259253;ENSP00000389441" "Q9NYU2" "UGGT1" "56886" "UDP-glucose glycoprotein glucosyltransferase 1" "HUGT1;UGCGL1" "Endoplasmic reticulum;Cytosol" "SwissProt;CellAtlas"
"ENSG00000136750" "ENST00000376261;ENST00000259271;ENST00000428517;ENST00000648567;ENST00000376248" "ENSP00000365437;ENSP00000259271;ENSP00000390434;ENSP00000498009" "Q05329" "GAD2" "2572" "glutamate decarboxylase 2" "GAD65" "Cytosol;Golgi apparatus" "SwissProt"
"ENSG00000136810" "ENST00000374515;ENST00000374517;ENST00000487892" "ENSP00000363639;ENSP00000363641" "P10599" "TXN" "7295" "thioredoxin" "TRX" "Nucleus;Cytosol" "SwissProt;CellAtlas"
"ENSG00000136840" "ENST00000335791;ENST00000495983;ENST00000474282;ENST00000467674;ENST00000361444;ENST00000483438;ENST00000479747" "ENSP00000336733;ENSP00000355130" "Q9H4F1" "ST6GALNAC4" "27090" "ST6 N-acetylgalactosaminide alpha-2,6-sialyltransferase 4" "SIAT3C;SIAT7D;ST6GALNACIV" "Golgi apparatus;Nucleus" "CellAtlas"
Expand Down Expand Up @@ -1570,7 +1568,6 @@
"ENSG00000147123" "ENST00000377811;ENST00000276062" "ENSP00000367042;ENSP00000276062" "Q9NX14" "NDUFB11" "54539" "NADH:ubiquinone oxidoreductase subunit B11" "ESSS;Np15;NP17.3" "Inner mitochondria" "SwissProt;CellAtlas"
"ENSG00000147155" "ENST00000276096;ENST00000498425;ENST00000495186;ENST00000446158;ENST00000414061;ENST00000466461" "ENSP00000417052;ENSP00000390031;ENSP00000405832" "Q15125" "EBP" "10682" "EBP cholestenol delta-isomerase" "CDPX2;CHO2;CPX;CPXD" "Endoplasmic reticulum;Nucleus;Cytosol" "SwissProt;CellAtlas"
"ENSG00000147160" "ENST00000276101;ENST00000440401;ENST00000443056" "ENSP00000421172;ENSP00000427523" "Q6E213" "AWAT2" "158835" "acyl-CoA wax alcohol acyltransferase 2" "DGAT2L4;MFAT" "Endoplasmic reticulum" "SwissProt"
"ENSG00000147162" "ENST00000488174;ENST00000373719;ENST00000373701;ENST00000472270;ENST00000498566;ENST00000444774;ENST00000455587;ENST00000459760;ENST00000462638;ENST00000466181;ENST00000474633" "ENSP00000362824;ENSP00000362805;ENSP00000399729" "O15294" "OGT" "8473" "O-linked N-acetylglucosamine (GlcNAc) transferase" "FLJ23071;HRNT1;MGC22921;O-GLCNAC;OGT1" "Mitochondria;Nucleus;Cytosol" "SwissProt;CellAtlas"
"ENSG00000147224" "ENST00000675304;ENST00000643795;ENST00000645638;ENST00000372418;ENST00000646815;ENST00000644642;ENST00000372435;ENST00000674826;ENST00000372419;ENST00000645903;ENST00000674525;ENST00000676092;ENST00000674843;ENST00000675720;ENST00000675046;ENST00000675921;ENST00000675630;ENST00000675124;ENST00000675082;ENST00000675353;ENST00000676365;ENST00000675875;ENST00000372428;ENST00000676322;ENST00000675263" "ENSP00000496286;ENSP00000496554;ENSP00000361495;ENSP00000495801;ENSP00000495493;ENSP00000361512;ENSP00000502278;ENSP00000361496;ENSP00000502780;ENSP00000502260;ENSP00000501721;ENSP00000501767;ENSP00000502707;ENSP00000502050;ENSP00000502439;ENSP00000502347;ENSP00000502149;ENSP00000501550;ENSP00000502070;ENSP00000361505;ENSP00000501977;ENSP00000502081" "P60891" "PRPS1" "5631" "phosphoribosyl pyrophosphate synthetase 1" "CMTX5;DFN2;DFNX1" "Cytosol;Nucleus" "DeepLoc2"
"ENSG00000147383" "ENST00000370274;ENST00000432467;ENST00000440023" "ENSP00000359297;ENSP00000396266;ENSP00000391854" "Q15738" "NSDHL" "50814" "NAD(P) dependent steroid dehydrogenase-like" "H105e3;SDR31E1;XAP104" "Endoplasmic reticulum" "SwissProt;CellAtlas"
"ENSG00000147408" "ENST00000454498;ENST00000332246;ENST00000397998;ENST00000522854;ENST00000518542;ENST00000519222;ENST00000523262;ENST00000517494;ENST00000520003;ENST00000524213;ENST00000517651;ENST00000523227;ENST00000522732;ENST00000522573;ENST00000523919;ENST00000524112" "ENSP00000411816;ENSP00000330805;ENSP00000381084;ENSP00000429809;ENSP00000428216;ENSP00000428089;ENSP00000429130;ENSP00000428774;ENSP00000427740" "Q8TDX6" "CSGALNACT1" "55790" "chondroitin sulfate N-acetylgalactosaminyltransferase 1" "ChGn;CSGalNAcT-1;FLJ11264" "Golgi apparatus;Cytosol" "SwissProt;CellAtlas"
Expand Down Expand Up @@ -2296,7 +2293,6 @@
"ENSG00000175548" "ENST00000308742;ENST00000551464;ENST00000553138;ENST00000548240" "ENSP00000310120;ENSP00000448819;ENSP00000449210" "Q5I7T1" "ALG10B" "144245" "ALG10 alpha-1,2-glucosyltransferase B" "KCR1" "Endoplasmic reticulum" "CellAtlas"
"ENSG00000175564" "ENST00000314032;ENST00000545271;ENST00000426995;ENST00000544614" "ENSP00000323740;ENSP00000392143;ENSP00000445279" "P55916" "UCP3" "7352" "uncoupling protein 3" "SLC25A9" "Nucleus;Cytosol;Inner mitochondria" "SwissProt;CellAtlas"
"ENSG00000175567" "ENST00000663595;ENST00000310473;ENST00000536983;ENST00000544615;ENST00000545212;ENST00000545562;ENST00000543714;ENST00000539764;ENST00000542615;ENST00000541027;ENST00000539330" "ENSP00000499695;ENSP00000312029;ENSP00000441147;ENSP00000439706;ENSP00000438230" "P55851" "UCP2" "7351" "uncoupling protein 2" "BMIQ4;SLC25A8" "Inner mitochondria" "SwissProt;CellAtlas"
"ENSG00000175711" "ENST00000572977;ENST00000572267;ENST00000573363;ENST00000570947;ENST00000576599;ENST00000320865;ENST00000571301;ENST00000571394;ENST00000571954;ENST00000573629;ENST00000571218" "ENSP00000459327;ENSP00000461127;ENSP00000319979;ENSP00000458682" "Q67FW5" "B3GNTL1" "146712" "UDP-GlcNAc:betaGal beta-1,3-N-acetylglucosaminyltransferase like 1" "B3GNT8" "Nucleus" "CellAtlas"
"ENSG00000175806" "ENST00000317173;ENST00000441698;ENST00000518255;ENST00000521209;ENST00000522907;ENST00000528246;ENST00000523637;ENST00000382490;ENST00000521686;ENST00000517594" "ENSP00000313921;ENSP00000410912;ENSP00000429461;ENSP00000435644;ENSP00000428214;ENSP00000436839;ENSP00000371930;ENSP00000427725" "Q9UJ68" "MSRA" "4482" "methionine sulfoxide reductase A" "" "Nucleus;Cytosol" "SwissProt;CellAtlas"
"ENSG00000175809" "ENST00000323684" "ENSP00000323348" "Q8N7E2" "CBLL2" "158506" "Cbl proto-oncogene like 2" "CT138;FLJ25735;HAKAIL;ZNF645" "Cytosol" "SwissProt"
"ENSG00000175893" "ENST00000380916;ENST00000497966" "ENSP00000370303" "Q8IVQ6" "ZDHHC21" "340481" "zinc finger DHHC-type palmitoyltransferase 21" "DHHC21;DNZ1;HSPC097" "Golgi apparatus;Cytosol" "SwissProt;CellAtlas"
Expand Down