Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.4.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07585	0.725
27DAP/17DAP	1.15312	0.833
39DAP/27DAP	0.7207	0.328
41DAP/39DAP	1.4453	0.229
42DAP/41DAP	1.03958	1
43DAP/42DAP	1.03739	1
47DAP/43DAP	1.23676	0.269
52DAP/47DAP	1.53874	0.538
57DAP/52DAP	0.89538	0.899

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04334	0.735
17DAP/reference	1.09451	0.026
27DAP/reference	0.97678	0.428
39DAP/reference	1.00443	1
41DAP/reference	1.05783	0.365
42DAP/reference	0.89097	0.048
43DAP/reference	0.95702	0.519
47DAP/reference	0.92778	0.032
52DAP/reference	0.95537	0.371
57DAP/reference	0.88157	0.086

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15667	0.348
27DAP/17DAP	1.02436	1
39DAP/27DAP	0.93349	0.587
41DAP/39DAP	0.99699	1
42DAP/41DAP	1.02772	0.947
43DAP/42DAP	1.08609	0.478
47DAP/43DAP	1.00106	1
52DAP/47DAP	0.97626	0.902
57DAP/52DAP	0.84995	0.326
57DAP/7DAP	1.14036

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04817	1
17DAP/reference	0.83691	0.144
27DAP/reference	0.90952	0.094
39DAP/reference	1.53547	0.21
41DAP/reference	1.08448	1
42DAP/reference	1.13694	0.174
43DAP/reference	1.07031	0.364
47DAP/reference	0.99561	1
52DAP/reference	1.24596	0.212
57DAP/reference	1.03963	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0878	0.177
17DAP/reference	1.0678	0.437
27DAP/reference	0.93092	0.269
39DAP/reference	1.0459	0.978
41DAP/reference	0.95003	0.331
42DAP/reference	0.90538	0.098
43DAP/reference	0.94362	0.459
47DAP/reference	0.89625	0.066
52DAP/reference	1.07423	0.194
57DAP/reference	1.31503	0.013

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97623	0.653
17DAP/reference	1.0637	0.854
27DAP/reference	0.71058
39DAP/reference	0.80097
41DAP/reference	0.95021	0.618
42DAP/reference	0.799	0.22
43DAP/reference	0.93369	0.503
47DAP/reference	0.90218	0.161
52DAP/reference	1.05635	0.801
57DAP/reference	0.58178	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04668	0.966
26DAP/20DAP	0.84857	0.512
34DAP/26DAP	0.87169	0.675
51DAP/34DAP	1.39673	0.377
52DAP/51DAP	0.95249	1
53DAP/52DAP	0.91036	0.562
55DAP/53DAP	0.90795	0.563
57DAP/55DAP	1.25567	0.666
62DAP/57DAP	1.03421	0.185
68DAP/62DAP	1.05448	1
68DAP/14DAP	1.01678	1

Experiment: Tomato (breaker-stage) vs. Pepper (breaker-stage)

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.80823	0.068

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.97087	0.66
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.85837	0.69
1-1-2/M82	1.0596	1
12-2/M82	1.02786	1
12-4/M82	1.11813	1
1-3/M82	0.96603	0.441
2-1-1/M82	1.04586	1
2-1/M82	1.11304
2-6/M82	1.29113	0.505
3-2/M82	0.83696
4-1-1/M82	0.93182
4-1/M82	1.11062	1
4-3-2/M82	0.8942	1
4-3/M82	0.92802	1
5-3/M82	1.0262	1
6-2/M82	N/A	N/A
6-3/M82	0.95777	1
7-1/M82	N/A	N/A
7-2/M82	0.96148	0.881
9-3-2/M82	0.80938	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.72577	0.247
IL2-6/WTpooled	0.91101	1
IL7-5/WTpooled	0.89533	1
IL7-3/WTpooled	0.8788	0.418
IL12-4/WTpooled	1.06684	0.839
IL1-4/WTpooled	0.96577	1
WT/WTpooled	0.96157	1

Experiment: Transcriptional changes determined by expression of the Xanthomonas AvrRxv effector in resistant tomato plants

hybridization	ratio	FDR (corrected p value)
10 h post inoculation	0.5486

Experiment: Time course of DC3000 vs delta hrp on tomato Prf-3

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98833	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.02189	1
DC3000/delta hrp 24h	1.17166	0.383

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05813
DC3000 delta B/DC3000 delta AB	1.02149	1

Experiment: Matt's wild cherry tomato vs. Phytophthora infestans

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

Experiment: Gene expression profiling of infection of tomato by Phytophthora infestans in the field

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.09564	0.421
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

Experiment: Transcriptional profiling of the tomato fruit pericarp tissue: fruits overexpressing yeast ySAMdc gene and controls

hybridization	ratio	FDR (corrected p value)
transgenic ySAMdc/azygous control (mature green)	0.98626	0.662
transgenic ySAMdc/azygous control (breaker)	0.96429	1
transgenic ySAMdc/azygous control (red)	0.96059	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97992	0.534

Experiment: Microarray Analysis on Salt Stress Affected Genes in Tomato Seedlings

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09947	1

Experiment: Transcriptional Profiling of high pigment-2dg Tomato Mutant Fruit

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.63462	0.172
Manapal/WT (break)	0.62348	1
Manapal/WT (red)	0.82777	0.242