bio-vis-expression-bar
Version:
Simple barchart to show expression levels across experiments
1,840 lines (1,839 loc) • 708 kB
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{
"gene": "Traes_5BS_0AFC3F795.1",
"compare": "Traes_4DS_1CF5D9107.1",
"values": {
"Traes_5BS_0AFC3F795.1": {
"tpm": {
"315": {
"experiment": "315",
"value": 24.5302
},
"316": {
"experiment": "316",
"value": 18.3407
},
"317": {
"experiment": "317",
"value": 20.382
},
"318": {
"experiment": "318",
"value": 26.8967
},
"319": {
"experiment": "319",
"value": 28.3076
},
"320": {
"experiment": "320",
"value": 22.3743
},
"321": {
"experiment": "321",
"value": 23.4027
},
"347": {
"experiment": "347",
"value": 8.81713
}
}
},
"Traes_4DS_1CF5D9107.1": {
"tpm": {
"315": {
"experiment": "315",
"value": 5.78975
},
"316": {
"experiment": "316",
"value": 3.9824
},
"317": {
"experiment": "317",
"value": 4.13884
},
"318": {
"experiment": "318",
"value": 4.5919
},
"319": {
"experiment": "319",
"value": 6.98978
},
"320": {
"experiment": "320",
"value": 7.97998
},
"321": {
"experiment": "321",
"value": 0.0726856
},
"347": {
"experiment": "347",
"value": 0
}
}
}
},
"factorOrder": {
"study": {
"Development": 1,
"PAMP Triggered Imune Response": 2,
"CS_spike": 3,
"developing spike": 4,
"CS_methylome": 5,
"Aneuploidy": 6,
"DRP000768": 7,
"ERP004505": 8,
"ERP008767": 9,
"SRP004884": 10,
"SRP013449": 11,
"SRP017303": 12,
"SRP022869": 13,
"ERP003465": 14,
"SRP028357": 15,
"SRP029372": 16,
"SRP038912": 17,
"SRP041017": 18,
"SRP045409": 19,
"SRP056412": 20,
"choulet_URGI": 21,
"ERP016738": 22,
"ERP013829": 23,
"SRP078208": 24,
"ERP015130": 25,
"SRP068165": 26,
"SRP068156": 27,
"SRP067916": 28,
"SRP064598": 29,
"ERP009837": 30,
"SRP060670": 31,
"SRP048912": 32,
"SRP043554": 33,
"ERP013983": 34
},
"Age": {
"2d": 1,
"3d": 2,
"4d": 3,
"7d": 4,
"see": 5,
"9d": 6,
"14d": 7,
"17d": 8,
"3_lea": 9,
"24d": 10,
"till": 11,
"5_lea": 12,
"7_lea": 13,
"1_sp": 14,
"2_no": 15,
"uninu": 16,
"micro": 17,
"karyo": 18,
"boot": 19,
"fboot": 20,
"f_lea": 21,
"emer": 22,
"30%sp": 23,
"e_ant": 24,
"anth": 25,
"l_ant": 26,
"2dpa": 27,
"4dpa": 28,
"6dpa": 29,
"8dpa": 30,
"9dpa": 31,
"10dpa": 32,
"mil_g": 33,
"g_fil": 34,
"12dpa": 35,
"4+dpa": 36,
"14dpa": 37,
"15dpa": 38,
"s_dou": 39,
"dou": 40,
"20dpa": 41,
"25dpa": 42,
"h_dou": 43,
"30dpa": 44,
"35dpa": 45,
"rip": 46
},
"High level age": {
"see": 1,
"veg": 2,
"repr": 3
},
"High level stress-disease": {
"none": 1,
"dis": 2,
"abio": 3
},
"High level tissue": {
"spike": 1,
"grain": 2,
"le+sh": 3,
"roots": 4
},
"High level variety": {
"CS": 1,
"Azh ": 2,
"other": 3,
"N_CS": 4
},
"Intermediate": {
"gr_mi": 1,
"gr_ha": 2,
"en": 3,
"al_e": 4,
"e_sc": 5,
"sc": 6,
"al": 7,
"tc": 8,
"st_ov": 9,
"anth": 10,
"micro": 11,
"emb": 12,
"awn": 13,
"glu": 14,
"spike": 15,
"s_let": 16,
"rach": 17,
"ped": 18,
"int": 19,
"sam": 20,
"s_aer": 21,
"sax": 22,
"v_aer": 23,
"lea_b": 24,
"lea_s": 25,
"lea": 26,
"lea_l": 27,
"flb": 28,
"fls": 29,
"f_lea": 30,
"root": 31,
"ram": 32
},
"Intermediate stress": {
"NA": 1,
"none": 2,
"contr": 3,
"chit": 4,
"flg22": 5,
"p_mil": 6,
"str": 7,
"str_2": 8,
"Zymo": 9,
"fus": 10,
"fus_2": 11,
"P-": 12,
"PEG": 13,
"drou": 14,
"heat": 15,
"dh": 16,
"cold": 17
},
"Stress-disease": {
"none": 1,
"contr": 2,
"mo3h": 3,
"mo6h": 4,
"mo12h": 5,
"mo1d": 6,
"mo24h": 7,
"mo30h": 8,
"mo3d": 9,
"mo36h": 10,
"mo4d": 11,
"mo48h": 12,
"mo50h": 13,
"mo5d": 14,
"mo9d": 15,
"mo14d": 16,
"mo21d": 17,
"fu3h": 18,
"fu6h": 19,
"fu12h": 20,
"fu24h": 21,
"fu30h": 22,
"fu36h": 23,
"fu4d": 24,
"fu48h": 25,
"fu50h": 26,
"fuaba": 27,
"fuga": 28,
"fp3d": 29,
"fp36h": 30,
"fp5d": 31,
"sr1d": 32,
"sr24h": 33,
"sr2d": 34,
"sr48h": 35,
"sr3d": 36,
"sr72h": 37,
"sr5d": 38,
"sr6+d": 39,
"sr7d": 40,
"sr9d": 41,
"sr11d": 42,
"pm24h": 43,
"pm48h": 44,
"pm72h": 45,
"st4d": 46,
"st10d": 47,
"st13d": 48,
"zt1d": 49,
"zt14d": 50,
"zt21d": 51,
"zt4d": 52,
"zt9d": 53,
"mo_a": 54,
"mo_s": 55,
"chit": 56,
"flg22": 57,
"ds1h": 58,
"ds6h": 59,
"hs1h": 60,
"hs6h": 61,
"dhs1h": 62,
"dhs6h": 63,
"water": 64,
"drou": 65,
"pe2h": 66,
"pe12h": 67,
"cold": 68,
"co": 69,
"ti_co": 70,
"P-10d": 71
},
"Tissue": {
"grain": 1,
"w_en": 2,
"s_en": 3,
"en": 4,
"al_e": 5,
"e_sc": 6,
"sc": 7,
"al": 8,
"tc": 9,
"pist": 10,
"ps": 11,
"sta": 12,
"ov": 13,
"st_ov": 14,
"anth": 15,
"micro": 16,
"emb": 17,
"awn": 18,
"glu": 19,
"lem": 20,
"sp_b": 21,
"sp_m": 22,
"sp_t": 23,
"spike": 24,
"s_lets": 25,
"s_let": 26,
"rach": 27,
"ped": 28,
"int_2": 29,
"stem": 30,
"sam": 31,
"col": 32,
"see": 33,
"shoot": 34,
"sax": 35,
"st_ax": 36,
"1_lb": 37,
"1_ls": 38,
"2_lea": 39,
"3_lb": 40,
"3_ls": 41,
"lea": 42,
"lea_l": 43,
"4_lea": 44,
"5lb": 45,
"5lb_s": 46,
"5lbn+": 47,
"5lbn-": 48,
"5_ls": 49,
"f_lea": 50,
"flb": 51,
"flbs": 52,
"flbn+": 53,
"flbn-": 54,
"fls": 55,
"root": 56,
"ax_ro": 57,
"ram": 58,
"radi": 59
},
"Variety": {
"CS": 1,
"Azh": 2,
"Hold": 3,
"TAM": 4,
"Banks": 5,
"Avoc": 6,
"AvocY": 7,
"Sevin": 8,
"Bobw": 9,
"Char2": 10,
"Field": 11,
"Gemm": 12,
"Giz": 13,
"Mani": 14,
"Rib": 15,
"Svil": 16,
"Vuka": 17,
"P271": 18,
"CSNIL": 19,
"HTS-1": 20,
"N9134": 21,
"CM": 22,
"CM_1": 23,
"CM_2": 24,
"CM_3": 25,
"CM_4": 26,
"JNILR": 27,
"JNILS": 28,
"NIL38": 29,
"NIL51": 30,
"WKDH": 31,
"unkn": 32,
"Baxt": 33,
"Chara": 34,
"Westo": 35,
"Yipti": 36,
"0362+": 37,
"0807+": 38,
"1038+": 39,
"1275+": 40,
"1516+": 41,
"0807-": 42,
"1038-": 43,
"1275-": 44,
"0362-": 45,
"1516-": 46,
"N1ATB": 47,
"N1ATD": 48,
"N1BTA": 49,
"N1BTD": 50,
"N1DTA": 51,
"N1DTB": 52,
"N5ATB": 53,
"N5ATD": 54,
"N5BTA": 55,
"N5BTD": 56,
"N5DTA": 57,
"N5DTB": 58
}
},
"longFactorName": {
"study": {
"Development": "Development",
"PAMP Triggered Imune Response": "PAMP Triggered Imune Response",
"CS_spike": "CS_spike",
"developing spike": "developing spike",
"CS_methylome": "CS_methylome",
"Aneuploidy": "Aneuploidy",
"DRP000768": "DRP000768",
"ERP004505": "ERP004505",
"ERP008767": "ERP008767",
"SRP004884": "SRP004884",
"SRP013449": "SRP013449",
"SRP017303": "SRP017303",
"SRP022869": "SRP022869",
"ERP003465": "ERP003465",
"SRP028357": "SRP028357",
"SRP029372": "SRP029372",
"SRP038912": "SRP038912",
"SRP041017": "SRP041017",
"SRP045409": "SRP045409",
"SRP056412": "SRP056412",
"choulet_URGI": "choulet_URGI",
"ERP016738": "ERP016738",
"ERP013829": "ERP013829",
"SRP078208": "SRP078208",
"ERP015130": "ERP015130",
"SRP068165": "SRP068165",
"SRP068156": "SRP068156",
"SRP067916": "SRP067916",
"SRP064598": "SRP064598",
"ERP009837": "ERP009837",
"SRP060670": "SRP060670",
"SRP048912": "SRP048912",
"SRP043554": "SRP043554",
"ERP013983": "ERP013983"
},
"Age": {
"2d": "2 days",
"3d": "3 days ",
"4d": "4 days",
"7d": "7 days",
"see": "seedling stage",
"9d": "9 days",
"14d": "14 days",
"17d": "17 days",
"3_lea": "three leaf stage",
"24d": "24 days",
"till": "tillering stage",
"5_lea": "fifth leaf stage",
"7_lea": "seven leaf stage",
"1_sp": "1 cm spike",
"2_no": "two nodes detectable",
"uninu": "late vacuolated uninucleate stage",
"micro": "enlarged microspores with a star-like structure",
"karyo": "first visible karyokinesis",
"boot": "booting",
"fboot": "Full boot",
"f_lea": "Flag leaf stage",
"emer": "Ear emergence",
"30%sp": "30% spike",
"e_ant": "Early anthesis",
"anth": "anthesis",
"l_ant": "Late anthesis",
"2dpa": "2 dpa",
"4dpa": "4 dpa",
"6dpa": "6 dpa",
"8dpa": "8 dpa",
"9dpa": "9 dpa",
"10dpa": "10 dpa",
"mil_g": "milk grain stage",
"g_fil": "grain filling",
"12dpa": "12 dpa",
"4+dpa": "4-12 dpa",
"14dpa": "14 dpa",
"15dpa": "15 dpa",
"s_dou": "Soft dough",
"dou": "Dough",
"20dpa": "20 dpa",
"25dpa": "25 dpa",
"h_dou": "Hard dough",
"30dpa": "30 dpa",
"35dpa": "35 dpa",
"rip": "Ripening"
},
"High level age": {
"see": "seedling",
"veg": "vegetative",
"repr": "reproductive"
},
"High level stress-disease": {
"none": "none",
"dis": "disease",
"abio": "abiotic"
},
"High level tissue": {
"spike": "spike",
"grain": "grain",
"le+sh": "leaves/shoots",
"roots": "roots"
},
"High level variety": {
"CS": "Chinese Spring",
"Azh ": "Azhurnaya",
"other": "other",
"N_CS": "Nullitetra Chinese Spring"
},
"Intermediate": {
"gr_mi": "grain milk and soft dough",
"gr_ha": "grain hard dough and ripening",
"en": "endosperm",
"al_e": "aleurone layer and starchy endosperm",
"e_sc": "endosperm + seed coat",
"sc": "seed coat",
"al": "aleurone",
"tc": "transfer cells",
"st_ov": "stigma & ovary",
"anth": "anther",
"micro": "microspores",
"emb": "embryo",
"awn": "awns",
"glu": "glumes",
"spike": "spike",
"s_let": "spikelets",
"rach": "rachis",
"ped": "peduncle",
"int": "internode",
"sam": "shoot apical meristem",
"s_aer": "seedling aerial tissues",
"sax": "shoot axis",
"v_aer": "vegetative aerial tissues",
"lea_b": "leaf blades excl flag",
"lea_s": "leaf sheaths excl flag",
"lea": "leaf excl flag leaf",
"lea_l": "leaf ligule",
"flb": "flag leaf blade",
"fls": "flag leaf sheath",
"f_lea": "flag leaf",
"root": "roots",
"ram": "root apical meristem"
},
"Intermediate stress": {
"NA": "NA",
"none": "none",
"contr": "No stress control",
"chit": "PAMP chitin",
"flg22": "PAMP flg22",
"p_mil": "powdery mildew",
"str": "stripe rust",
"str_2": "stripe rust 2",
"Zymo": "Zymoseptoria tritici",
"fus": "Fusarium pseudograminearum",
"fus_2": "Fusarium pseudograminearum study2",
"P-": "Phosphorous starvation 10 d shoots",
"PEG": "PEG 6000",
"drou": "drought stress",
"heat": "heat stress",
"dh": "drought&heat combined stress",
"cold": "cold 2 weeks (4C)"
},
"Stress-disease": {
"none": "none",
"contr": "control",
"mo3h": "mock inoculation 3 hours",
"mo6h": "mock inoculation 6 hours",
"mo12h": "mock inoculation 12 hours",
"mo1d": "mock inoculation 1 day",
"mo24h": "mock inoculation 24 hours",
"mo30h": "mock inoculation 30 hours",
"mo3d": "mock inoculation 3 days",
"mo36h": "mock inoculation 36 hours",
"mo4d": "mock inoculation 4 days",
"mo48h": "mock inoculation 48 hours",
"mo50h": "mock inoculation 50 hours",
"mo5d": "mock inoculation 5 days",
"mo9d": "mock inoculation 9 days",
"mo14d": "mock inoculation 14 days",
"mo21d": "mock inoculation 21 days",
"fu3h": "Fusarium graminearum inoculation 3 hours",
"fu6h": "Fusarium graminearum inoculation 6 hours",
"fu12h": "Fusarium graminearum inoculation 12 hours",
"fu24h": "Fusarium graminearum inoculation 24 hours",
"fu30h": "Fusarium graminearum inoculation 30 hours",
"fu36h": "Fusarium graminearum inoculation 36 hours",
"fu4d": "Fusarium graminearum inoculation 4 days",
"fu48h": "Fusarium graminearum inoculation 48 hours",
"fu50h": "Fusarium graminearum inoculation 50 hours",
"fuaba": "Fusarium graminearum and 1mM ABA inoculation 24 hours",
"fuga": "Fusarium graminearum and 1mM giberellic acid inoculation 24 hours",
"fp3d": "Fusarium pseudograminearum inoculation 3 days",
"fp36h": "Fusarium pseudograminearum inoculation 36 hours",
"fp5d": "Fusarium pseudograminearum inoculation 5 days",
"sr1d": "stripe rust pathogen 87/66 1 day",
"sr24h": "stripe rust pathogen CYR31 24 hours",
"sr2d": "stripe rust pathogen 87/66 2 days",
"sr48h": "stripe rust pathogen CYR31 48 hours",
"sr3d": "stripe rust pathogen 87/66 3 days",
"sr72h": "stripe rust pathogen CYR31 72 hours",
"sr5d": "stripe rust pathogen 87/66 5 days",
"sr6+d": "stripe rust mixture 6/14 days",
"sr7d": "stripe rust pathogen 87/66 7 days",
"sr9d": "stripe rust pathogen 87/66 9 days",
"sr11d": "stripe rust pathogen 87/66 11 days",
"pm24h": "Powdery mildew pathogen E09 24 hours",
"pm48h": "Powdery mildew pathogen E09 48 hours",
"pm72h": "Powdery mildew pathogen E09 72 hours",
"st4d": "Septoria tritici 4 days",
"st10d": "Septoria tritici 10 days",
"st13d": "Septoria tritici 13 days",
"zt1d": "Zymoseptoria tritici inoculation 1 day",
"zt14d": "Zymoseptoria tritici inoculation 14 days",
"zt21d": "Zymoseptoria tritici inoculation 21 days",
"zt4d": "Zymoseptoria tritici inoculation 4 days",
"zt9d": "Zymoseptoria tritici inoculation 9 days",
"mo_a": "Magnaporthe oryzae asymptomatic",
"mo_s": "Magnaporthe oryzae symptomatic",
"chit": "chitin (1 g per liter)",
"flg22": "flg22 (500 nM)",
"ds1h": "1 hour of drought stress",
"ds6h": "6 hour of drought stress",
"hs1h": "1 hour of heat stress",
"hs6h": "6 hour of heat stress",
"dhs1h": "1 hour of drought&heat combined stress",
"dhs6h": "6 hour of drought&heat combined stress",
"water": "water",
"drou": "water stress early booting",
"pe2h": "PEG 6000 2 hours",
"pe12h": "PEG 6000 12 hours",
"cold": "cold 2 weeks (4C)",
"co": "10 days cold treatment",
"ti_co": "tissue culture following 10 days cold treatment",
"P-10d": "Phosphorous starvation 10 days"
},
"Tissue": {
"grain": "grain",
"w_en": "whole endosperm",
"s_en": "starchy endosperm",
"en": "endosperm",
"al_e": "aleurone layer and starchy endosperm",
"e_sc": "starchy endosperm + seed coat",
"sc": "seed coat",
"al": "aleurone layer",
"tc": "transfer cells",
"pist": "pistil",
"ps": "pistillody stamen",
"sta": "stamen",
"ov": "ovary",
"st_ov": "stigma & ovary",
"anth": "anther",
"micro": "microspores",
"emb": "embryo proper",
"awn": "awns",
"glu": "glumes",
"lem": "lemma",
"sp_b": "spike (bottom third)",
"sp_m": "spike (middle third)",
"sp_t": "spike (top third)",
"spike": "spike",
"s_lets": "spikelets",
"s_let": "spikelets (only using palea, lemma and rachis)",
"rach": "rachis",
"ped": "peduncle",
"int_2": "Internode #2",
"stem": "stem",
"sam": "shoot apical meristem",
"col": "coleoptile",
"see": "seedling",
"shoot": "shoots",
"sax": "shoot axis",
"st_ax": "stem axis",
"1_lb": "first leaf blade",
"1_ls": "first leaf sheath",
"2_lea": "second leaf",
"3_lb": "third leaf blade",
"3_ls": "third leaf sheath",
"lea": "leaf",
"lea_l": "leaf ligule",
"4_lea": "fourth leaf",
"5lb": "fifth leaf blade",
"5lb_s": "fifth leaf blade (senescence)",
"5lbn+": "fifth leaf blade night (+0.25h) 22:15",
"5lbn-": "fifth leaf blade night (-0.25h) 21:45",
"5_ls": "fifth leaf sheath",
"f_lea": "flag leaf",
"flb": "flag leaf blade",
"flbs": "flag leaf blade (senescence)",
"flbn+": "flag leaf blade night (+0.25h) 07:15",
"flbn-": "flag leaf blade night (-0.25h) 06:45",
"fls": "flag leaf sheath",
"root": "roots",
"ax_ro": "axillary roots",
"ram": "root apical meristem",
"radi": "radicle"
},
"Variety": {
"CS": "Chinese Spring",
"Azh": "Azhurnaya",
"Hold": "Holdfast",
"TAM": "TAM107",
"Banks": "Banks",
"Avoc": "Avocet S",
"AvocY": "Avocet+Yr5",
"Sevin": "Sevin",
"Bobw": "Bobwhite",
"Char2": "Chara",
"Field": "Fielder",
"Gemm": "Gemmiza 10",
"Giz": "Giza 168",
"Mani": "Manitou",
"Rib": "Riband",
"Svil": "Svilena",
"Vuka": "Vuka",
"P271": "P271",
"CSNIL": "Chinese Spring NIL CSTP",
"HTS-1": "HTS-1",
"N9134": "N9134",
"CM": "CM-82036",
"CM_1": "NIL1 from CM-82036 BC5 in Remus",
"CM_2": "NIL2 from CM-82036 BC5 in Remus",
"CM_3": "NIL3 from CM-82036 BC5 in Remus",
"CM_4": "NIL4 from CM-82036 BC5 in Remus",
"JNILR": "Janz*2 NIL1 resistant",
"JNILS": "Janz*2 NIL1 susceptible",
"NIL38": "NIL38 from BC55F2 Remus in CM-82036",
"NIL51": "NIL51 from BC55F2 Remus in CM-82036",
"WKDH": "WestoniaxKauz DH line",
"unkn": "unknown (Bangladesh)",
"Baxt": "Baxter -4A dormancy QTL",
"Chara": "Chara -4A dormancy QTL",
"Westo": "Westonia -4A dormancy QTL",
"Yipti": "Yipti +4A dormancy QTL",
"0362+": "NIL 0362 +4A dormancy QTL",
"0807+": "NIL 0807 +4A dormancy QTL",
"1038+": "NIL 1038 +4A dormancy QTL",
"1275+": "NIL 1275 +4A dormancy QTL",
"1516+": "NIL 1516 +4A dormancy QTL",
"0807-": "NIL 0807 -4A dormancy QTL",
"1038-": "NIL 1038 -4A dormancy QTL",
"1275-": "NIL 1275 -4A dormancy QTL",
"0362-": "NIL 0362 -4A dormancy QTL",
"1516-": "NIL 1516 -4A dormancy QTL",
"N1ATB": "Chinese Spring, N1AT1B",
"N1ATD": "Chinese Spring, N1AT1D",
"N1BTA": "Chinese Spring, N1BT1A",
"N1BTD": "Chinese Spring, N1BT1D",
"N1DTA": "Chinese Spring, N1DT1A",
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