Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.15.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10391	1
27DAP/17DAP	1.49436	0.833
39DAP/27DAP	1.02436	0.749
41DAP/39DAP	1.16604	0.938
42DAP/41DAP	1.22641	1
43DAP/42DAP	1.144	1
47DAP/43DAP	1.03328	0.825
52DAP/47DAP	1.49942	0.63
57DAP/52DAP	1.13689	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7762	0.064
17DAP/reference	1.0977	0.154
27DAP/reference	0.97847	0.694
39DAP/reference	0.97008	0.663
41DAP/reference	1.02152	0.667
42DAP/reference	0.84121	0.012
43DAP/reference	1.04387	0.812
47DAP/reference	0.87974	0.027
52DAP/reference	0.73172	0.029
57DAP/reference	0.81715	0.186

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14775	0.072
27DAP/17DAP	1.03117	0.938
39DAP/27DAP	0.97456	0.721
41DAP/39DAP	1.03232	0.853
42DAP/41DAP	0.90941	0.453
43DAP/42DAP	0.95412	0.206
47DAP/43DAP	1.03194	0.827
52DAP/47DAP	0.95846	0.801
57DAP/52DAP	1.00178	1
57DAP/7DAP	0.98232	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00852	1
17DAP/reference	0.79696	0.017
27DAP/reference	1.06376	0.551
39DAP/reference	1.28201	0.024
41DAP/reference	1.26086	0.033
42DAP/reference	1.35796	0.024
43DAP/reference	1.95669	0.007
47DAP/reference	1.32248	0.161
52DAP/reference	1.69239	0.007
57DAP/reference	2.02207	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94163	0.386
17DAP/reference	1.20282	0.077
27DAP/reference	1.0701	0.961
39DAP/reference	1.07315	0.956
41DAP/reference	0.86591	0.108
42DAP/reference	0.79061	0.027
43DAP/reference	1.06023	0.745
47DAP/reference	0.87364	0.099
52DAP/reference	0.77558	0.06
57DAP/reference	0.95896	0.46

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91427	0.063
17DAP/reference	0.96393	0.571
27DAP/reference	0.85618	0.078
39DAP/reference	0.82071	0.018
41DAP/reference	0.82271	0.04
42DAP/reference	0.96462	0.552
43DAP/reference	0.86679	0.028
47DAP/reference	0.98904	0.61
52DAP/reference	1.6664	0.113
57DAP/reference	1.09532	0.873

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04244	1
26DAP/20DAP	1.03918	0.85
34DAP/26DAP	0.99484	1
51DAP/34DAP	1.08894	0.416
52DAP/51DAP	0.96636	1
53DAP/52DAP	0.99231	0.99
55DAP/53DAP	0.97557	0.82
57DAP/55DAP	0.88906	0.619
62DAP/57DAP	1.02712	1
68DAP/62DAP	1.10028	0.977
68DAP/14DAP	1.10111	0.676

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.02956	0.74

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	10.5059	0.058
Mature Green Tomato/Ripe Tomato	1.16876	0.632
Immature Eggplant/Mature Eggplant	0.21319	0.059
Ripe Pepper/Ripe Tomato	0.34149
Mature Eggplant/Ripe Tomato	0.8213	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99549	1
1-1-2/M82	1.01403	1
12-2/M82	0.98163	1
12-4/M82	0.99774	1
1-3/M82	1.04391	1
2-1-1/M82	1.17182	0.689
2-1/M82	1.01698	1
2-6/M82	1.04247	0.695
3-2/M82	0.8704	0.188
4-1-1/M82	0.9822	1
4-1/M82	1.16865	1
4-3-2/M82	0.99626	1
4-3/M82	0.9503	1
5-3/M82	0.98987	1
6-2/M82	1.12366	1
6-3/M82	1.04931	1
7-1/M82	1.02264	1
7-2/M82	0.99441	1
9-3-2/M82	1.04116

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.97984	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.14284	1
IL12-4/WTpooled	0.97326	1
IL1-4/WTpooled	1.05673
WT/WTpooled	0.98862	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	1.12497	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00604	1
DC3000/delta hrp 6h	1.54465	1
DC3000/delta hrp 12h	1.05865	1
DC3000/delta hrp 24h	1.02607	0.728

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.89409	0.032
DC3000 delta B/DC3000 delta AB	0.95236	0.431

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05999	1
Exp 36h	0.6076	0.406
Exp 60h	0.5298	0.251

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0259	1
Var 0h	0.72063	1
Var 12h I row2-row1	0.93441	0.467
Var 12h NI row2-row1	1.06458	1
Var 36h I row2-row1	1.08737	0.742
Var 36h NI row2-row1	1.0351	1
Var 60h I row2-row1	0.92514	0.439
Var 60h NI row2-row1	0.9197	0.977
Time course 0hI-0hNI	0.98057	0.935
Time course 12hI-12hNI	1.06668	0.493
Time course 36hI-36hNI	1.1673	0.05
Time course 60hI-60hNI	1.10637	0.16

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)	0.99435	0.931
transgenic ySAMdc/azygous control (breaker)	1.17197	0.248
transgenic ySAMdc/azygous control (red)	1.0797	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04854	0.223

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.38429	0.237

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.17473	0.14
Manapal/WT (break)	1.19877	1
Manapal/WT (red)	0.98742	1