Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.2.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86941	0.427
27DAP/17DAP	1.3422	0.677
39DAP/27DAP	0.93969	0.641
41DAP/39DAP	1.14459	0.85
42DAP/41DAP	1.20722	0.825
43DAP/42DAP	1.09274	1
47DAP/43DAP	1.2601	0.429
52DAP/47DAP	0.88797	0.678
57DAP/52DAP	1.08747	0.952

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79194	0.025
17DAP/reference	0.95074	0.393
27DAP/reference	0.93626	0.295
39DAP/reference	0.9368	0.333
41DAP/reference	0.87843	0.026
42DAP/reference	0.92416	0.151
43DAP/reference	0.9555	0.611
47DAP/reference	0.9649	0.3
52DAP/reference	1.14917	0.141
57DAP/reference	1.03402	0.984

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12827	0.312
27DAP/17DAP	1.01437	0.995
39DAP/27DAP	0.97583	0.859
41DAP/39DAP	1.11157	0.439
42DAP/41DAP	1.03113	0.984
43DAP/42DAP	0.90981	0.197
47DAP/43DAP	0.95023	0.687
52DAP/47DAP	1.12514	0.568
57DAP/52DAP	1.2506	0.1
57DAP/7DAP	0.95975

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38079	0.141
17DAP/reference	1.08827	0.221
27DAP/reference	1.83332	0.008
39DAP/reference	0.94582	0.23
41DAP/reference	1.55575	0.024
42DAP/reference	2.79256	0.007
43DAP/reference	4.58659	0.006
47DAP/reference	3.03923	0.086
52DAP/reference	2.55255	0.007
57DAP/reference	0.87713	0.105

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87385	0.197
17DAP/reference	0.97143	0.51
27DAP/reference	0.9559	0.423
39DAP/reference	0.94121	0.257
41DAP/reference	0.8978	0.035
42DAP/reference	0.82125	0.028
43DAP/reference	0.81984	0.068
47DAP/reference	0.78428	0.013
52DAP/reference	0.89163	0.086
57DAP/reference	0.8937	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18934	0.397
17DAP/reference	0.86507	0.335
27DAP/reference	1.25396	0.188
39DAP/reference	2.03396	0.091
41DAP/reference	1.28896	0.1
42DAP/reference	2.33419	0.014
43DAP/reference	2.0176	0.038
47DAP/reference	1.08703	0.388
52DAP/reference	1.7706	0.067
57DAP/reference	1.05605	0.625

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.40238	0.56
26DAP/20DAP	0.82778	0.512
34DAP/26DAP	1.04051	1
51DAP/34DAP	1.01176	0.936
52DAP/51DAP	1.0434	0.742
53DAP/52DAP	1.13623	0.608
55DAP/53DAP	0.82571	0.05
57DAP/55DAP	1.02554	1
62DAP/57DAP	1.05471	1
68DAP/62DAP	1.38988	0.405
68DAP/14DAP	1.07819	0.802

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96326	0.52

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.53483
Mature Green Tomato/Ripe Tomato	0.62365	0.026
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.47736
Mature Eggplant/Ripe Tomato	4.11563

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.70757
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.17493
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95242	1
IL2-6/WTpooled	0.90884	1
IL7-5/WTpooled	1.09191
IL7-3/WTpooled	0.84523	0.294
IL12-4/WTpooled	1.07575	0.839
IL1-4/WTpooled	0.99968	1
WT/WTpooled	1.01257	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	0.95206	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03947	0.921
DC3000/delta hrp 6h	1.19862	1
DC3000/delta hrp 12h	1.22258	1
DC3000/delta hrp 24h	0.35963	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.15181	0.598
DC3000 delta B/DC3000 delta AB	1.02748	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.78588	0.504
Exp 60h	0.93253	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02435	1
Var 0h	1.01801	1
Var 12h I row2-row1	1.08164	0.692
Var 12h NI row2-row1	1.14364	1
Var 36h I row2-row1	0.77194	1
Var 36h NI row2-row1	1.14983	1
Var 60h I row2-row1	0.86489
Var 60h NI row2-row1	1.07562	0.904
Time course 0hI-0hNI	0.97323	0.879
Time course 12hI-12hNI	1.11621	0.36
Time course 36hI-36hNI	1.06742	0.513
Time course 60hI-60hNI	0.86101	0.081

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)	1.04991	0.331
transgenic ySAMdc/azygous control (breaker)	1.12474	0.248
transgenic ySAMdc/azygous control (red)	1.09502	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01742	0.495

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.16494	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.87325	0.083
Manapal/WT (break)	2.03911	0.123
Manapal/WT (red)	1.67415	0.15