diff --git a/networkComplexityBigg/Data/shortOrganismNames.csv b/networkComplexityBigg/Data/shortOrganismNames.csv new file mode 100644 index 0000000000000000000000000000000000000000..aaa6da22a85e1bd6d08583c08361939426ad9f93 --- /dev/null +++ b/networkComplexityBigg/Data/shortOrganismNames.csv @@ -0,0 +1,103 @@ +"","X","bigg_id","organism","shortO","sO" +"1",1,"iYO844","Bacillus subtilis subsp. subtilis str. 168","Bacillus subtilis","B. subtilis" +"2",2,"iSM199","Buchnera aphidicola str. APS","Buchnera aphidicola","B. aphidicola" +"3",3,"iRC1080","Chlamydomonas","Chlamydomonas","Chlamydomonas" +"4",4,"iHN637","Clostridium ljungdahlii DSM 13528","Clostridium ljungdahlii","C. ljungdahlii" +"5",5,"iEC042_1314","Escherichia coli 042","Escherichia coli","E. coli" +"6",6,"iECP_1309","Escherichia coli 536","Escherichia coli","E. coli" +"7",7,"iEC55989_1330","Escherichia coli 55989","Escherichia coli","E. coli" +"8",8,"iECABU_c1320","Escherichia coli ABU 83972","Escherichia coli","E. coli" +"9",9,"iAPECO1_1312","Escherichia coli APEC O1","Escherichia coli","E. coli" +"10",10,"iEcolC_1368","Escherichia coli ATCC 8739","Escherichia coli","E. coli" +"11",11,"iECD_1391","Escherichia coli BL21(DE3)","Escherichia coli","E. coli" +"12",12,"iB21_1397","Escherichia coli BL21(DE3)","Escherichia coli","E. coli" +"13",13,"iECBD_1354","Escherichia coli BL21-Gold(DE3)pLysS AG","Escherichia coli","E. coli" +"14",14,"iECB_1328","Escherichia coli B str. REL606","Escherichia coli","E. coli" +"15",15,"iBWG_1329","Escherichia coli BW2952","Escherichia coli","E. coli" +"16",16,"ic_1306","Escherichia coli CFT073","Escherichia coli","E. coli" +"17",17,"iEcDH1_1363","Escherichia coli DH1","Escherichia coli","E. coli" +"18",18,"iECDH1ME8569_1439","Escherichia coli DH1","Escherichia coli","E. coli" +"19",19,"iEcE24377_1341","Escherichia coli E24377A","Escherichia coli","E. coli" +"20",20,"iECED1_1282","Escherichia coli ED1a","Escherichia coli","E. coli" +"21",21,"iETEC_1333","Escherichia coli ETEC H10407","Escherichia coli","E. coli" +"22",22,"iEcHS_1320","Escherichia coli HS","Escherichia coli","E. coli" +"23",23,"iECIAI1_1343","Escherichia coli IAI1","Escherichia coli","E. coli" +"24",24,"iECIAI39_1322","Escherichia coli IAI39","Escherichia coli","E. coli" +"25",25,"iECOK1_1307","Escherichia coli IHE3034","Escherichia coli","E. coli" +"26",26,"iEKO11_1354","Escherichia coli KO11FL","Escherichia coli","E. coli" +"27",27,"iLF82_1304","Escherichia coli LF82","Escherichia coli","E. coli" +"28",28,"iECNA114_1301","Escherichia coli NA114","Escherichia coli","E. coli" +"29",29,"iECO103_1326","Escherichia coli O103:H2 str. 12009","Escherichia coli","E. coli" +"30",30,"iECO111_1330","Escherichia coli O111:H- str. 11128","Escherichia coli","E. coli" +"31",31,"iE2348C_1286","Escherichia coli O127:H6 str. E2348/69","Escherichia coli","E. coli" +"32",32,"iECH74115_1262","Escherichia coli O157:H7 str. EC4115","Escherichia coli","E. coli" +"33",33,"iZ_1308","Escherichia coli O157:H7 str. EDL933","Escherichia coli","E. coli" +"34",34,"iECs_1301","Escherichia coli O157:H7 str. Sakai","Escherichia coli","E. coli" +"35",35,"iECSP_1301","Escherichia coli O157:H7 str. TW14359","Escherichia coli","E. coli" +"36",36,"iECO26_1355","Escherichia coli O26:H11 str. 11368","Escherichia coli","E. coli" +"37",37,"iG2583_1286","Escherichia coli O55:H7 str. CB9615","Escherichia coli","E. coli" +"38",38,"iNRG857_1313","Escherichia coli O83:H1 str. NRG 857C","Escherichia coli","E. coli" +"39",39,"iECS88_1305","Escherichia coli S88","Escherichia coli","E. coli" +"40",40,"iECSE_1348","Escherichia coli SE11","Escherichia coli","E. coli" +"41",41,"iECSF_1327","Escherichia coli SE15","Escherichia coli","E. coli" +"42",42,"iEcSMS35_1347","Escherichia coli SMS-3-5","Escherichia coli","E. coli" +"43",43,"iECDH10B_1368","Escherichia coli str. K-12 substr. DH10B","Escherichia coli","E. coli" +"44",44,"e_coli_core","Escherichia coli str. K-12 substr. MG1655","Escherichia coli","E. coli" +"45",45,"iAF1260","Escherichia coli str. K-12 substr. MG1655","Escherichia coli","E. coli" +"46",46,"iAF1260b","Escherichia coli str. K-12 substr. MG1655","Escherichia coli","E. coli" +"47",47,"iJO1366","Escherichia coli str. K-12 substr. MG1655","Escherichia coli","E. coli" +"48",48,"iJR904","Escherichia coli str. K-12 substr. MG1655","Escherichia coli","E. coli" +"49",49,"iY75_1357","Escherichia coli str. K-12 substr. W3110","Escherichia coli","E. coli" +"50",50,"iUMN146_1321","Escherichia coli UM146","Escherichia coli","E. coli" +"51",51,"iECUMN_1333","Escherichia coli UMN026","Escherichia coli","E. coli" +"52",52,"iUMNK88_1353","Escherichia coli UMNK88","Escherichia coli","E. coli" +"53",53,"iUTI89_1310","Escherichia coli UTI89","Escherichia coli","E. coli" +"54",54,"iECW_1372","Escherichia coli W","Escherichia coli","E. coli" +"55",55,"iWFL_1372","Escherichia coli W","Escherichia coli","E. coli" +"56",56,"iAF987","Geobacter metallireducens GS-15","Geobacter metallireducens","G. metallireducens" +"57",57,"iIT341","Helicobacter pylori 26695","Helicobacter pylori","H. pylori" +"58",58,"iYL1228","Klebsiella pneumoniae subsp. pneumoniae MGH 78578","Klebsiella pneumoniae","K. pneumoniae" +"59",59,"iAF692","Methanosarcina barkeri str. Fusaro","Methanosarcina barkeri","M. barkeri" +"60",60,"iNJ661","Mycobacterium tuberculosis H37Rv","Mycobacterium tuberculosis","M. tuberculosis" +"61",61,"iJN746","Pseudomonas putida KT2440","Pseudomonas putida","P. putida" +"62",62,"iMM904","Saccharomyces cerevisiae S288c","Saccharomyces cerevisiae","S. cerevisiae" +"63",63,"iND750","Saccharomyces cerevisiae S288c","Saccharomyces cerevisiae","S. cerevisiae" +"64",64,"STM_v1_0","Salmonella enterica subsp. enterica serovar Typhimurium str. LT2","Salmonella enterica","S. enterica" +"65",65,"iSbBS512_1146","Shigella boydii CDC 3083-94","Shigella boydii","S. boydii" +"66",66,"iSBO_1134","Shigella boydii Sb227","Shigella boydii","S. boydii" +"67",67,"iSDY_1059","Shigella dysenteriae Sd197","Shigella dysenteriae","S. dysenteriae" +"68",68,"iSFxv_1172","Shigella flexneri 2002017","Shigella flexneri","S. flexneri" +"69",69,"iS_1188","Shigella flexneri 2a str. 2457T","Shigella flexneri","S. flexneri" +"70",70,"iSF_1195","Shigella flexneri 2a str. 301","Shigella flexneri","S. flexneri" +"71",71,"iSFV_1184","Shigella flexneri 5 str. 8401","Shigella flexneri","S. flexneri" +"72",72,"iSSON_1240","Shigella sonnei Ss046","Shigella sonnei","S. sonnei" +"73",73,"iSB619","Staphylococcus aureus subsp. aureus N315","Staphylococcus aureus","S. aureus" +"74",74,"iJN678","Synechocystis sp. PCC 6803","Synechocystis","Synechocystis" +"75",75,"iLJ478","Thermotoga maritima MSB8","Thermotoga maritima","T. maritima" +"76",76,"iPC815","Yersinia pestis CO92","Yersinia pestis","Y. pestis" +"77",77,"iAM_Pb448","Plasmodium berghei","Plasmodium berghei","P. berghei" +"78",78,"iAM_Pc455","Plasmodium cynomolgi strain B","Plasmodium cynomolgi","P. cynomolgi" +"79",79,"iAM_Pf480","Plasmodium falciparum 3D7","Plasmodium falciparum","P. falciparum" +"80",80,"iAM_Pk459","Plasmodium knowlesi strain H","Plasmodium knowlesi","P. knowlesi" +"81",81,"iAM_Pv461","Plasmodium vivax Sal-1","Plasmodium vivax","P. vivax" +"82",82,"iCN718","Acinetobacter baumannii AYE","Acinetobacter baumannii","A. baumannii" +"83",83,"iCN900","Clostridioides difficile 630","Clostridioides difficile","C. difficile" +"84",84,"iEC1344_C","Escherichia coli C","Escherichia coli","E. coli" +"85",85,"iEC1349_Crooks","Escherichia coli ATCC 8739","Escherichia coli","E. coli" +"86",86,"iEC1356_Bl21DE3","Escherichia coli BL21(DE3)","Escherichia coli","E. coli" +"87",87,"iEC1364_W","Escherichia coli W","Escherichia coli","E. coli" +"88",88,"iEC1368_DH5a","Escherichia coli DH5[alpha]","Escherichia coli","E. coli" +"89",89,"iEC1372_W3110","Escherichia coli str. K-12 substr. W3110","Escherichia coli","E. coli" +"90",90,"iEK1008","Mycobacterium tuberculosis H37Rv","Mycobacterium tuberculosis","M. tuberculosis" +"91",91,"iIS312","Trypanosoma cruzi Dm28c","Trypanosoma cruzi","T. cruzi" +"92",92,"iIS312_Amastigote","Trypanosoma cruzi Dm28c","Trypanosoma cruzi","T. cruzi" +"93",93,"iIS312_Epimastigote","Trypanosoma cruzi Dm28c","Trypanosoma cruzi","T. cruzi" +"94",94,"iIS312_Trypomastigote","Trypanosoma cruzi Dm28c","Trypanosoma cruzi","T. cruzi" +"95",95,"iJB785","Synechococcus elongatus PCC 7942","Synechococcus elongatus","S. elongatus" +"96",96,"iLB1027_lipid","Phaeodactylum tricornutum CCAP 1055/1","Phaeodactylum tricornutum","P. tricornutum" +"97",97,"iNF517","Lactococcus lactis subsp. cremoris MG1363","Lactococcus lactis","L. lactis" +"98",98,"iSynCJ816","Synechocystis sp. PCC 6803","Synechocystis","Synechocystis" +"99",99,"iYS1720","Salmonella pan-reactome","Salmonella","Salmonella" +"100",100,"iML1515","Escherichia coli str. K-12 substr. MG1655","Escherichia coli","E. coli" +"101",101,"iJN1463","Pseudomonas putida KT2440","Pseudomonas putida","P. putida" +"102",102,"iYS854","Staphylococcus aureus subsp. aureus USA300_TCH1516 ","Staphylococcus aureus","S. aureus"