Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.8.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.12278	0.878
27DAP/17DAP	1.50736	0.479
39DAP/27DAP	1.08228	0.899
41DAP/39DAP	1.16618	0.549
42DAP/41DAP	1.10786	0.931
43DAP/42DAP	1.31807	0.854
47DAP/43DAP	1.4449	0.442
52DAP/47DAP	0.84135	0.581
57DAP/52DAP	1.00494	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96301	0.442
17DAP/reference	1.13544	0.27
27DAP/reference	0.97744	0.642
39DAP/reference	1.05277	0.639
41DAP/reference	1.04276	0.808
42DAP/reference	0.9472	0.139
43DAP/reference	0.98464	0.745
47DAP/reference	0.87881	0.035
52DAP/reference	0.65755	0.028
57DAP/reference	0.69279	0.029

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16629	0.593
27DAP/17DAP	1.26648	0.264
39DAP/27DAP	1.22396	0.292
41DAP/39DAP	0.5964	0.019
42DAP/41DAP	1.54073	0.225
43DAP/42DAP	1.9949	0.015
47DAP/43DAP	0.91936	0.606
52DAP/47DAP	1.54274	0.147
57DAP/52DAP	0.87888	0.514
57DAP/7DAP	1.12392	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86168	0.082
17DAP/reference	0.68313	0.011
27DAP/reference	0.62686	0.01
39DAP/reference	0.83875	0.02
41DAP/reference	0.86407	0.082
42DAP/reference	0.8578	0.123
43DAP/reference	0.73746	0.023
47DAP/reference	1.07298	0.659
52DAP/reference	0.82626	0.021
57DAP/reference	0.86381	0.109

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99443	0.869
17DAP/reference	0.94262	0.389
27DAP/reference	0.93642	0.34
39DAP/reference	1.04631	0.806
41DAP/reference	0.81252	0.035
42DAP/reference	1.04145	0.723
43DAP/reference	1.26684	0.447
47DAP/reference	0.97037	0.284
52DAP/reference	1.00119	0.761
57DAP/reference	1.20533	0.131

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81038	0.158
17DAP/reference	0.96998	0.636
27DAP/reference	0.7422	0.025
39DAP/reference	0.774	0.007
41DAP/reference	0.73967	0.025
42DAP/reference	0.73484	0.032
43DAP/reference	0.71421	0.054
47DAP/reference	0.90442	0.306
52DAP/reference	0.80014	0.18
57DAP/reference	0.59357	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03283	0.966
26DAP/20DAP	0.75701	0.317
34DAP/26DAP	0.97957	0.972
51DAP/34DAP	0.92221	0.624
52DAP/51DAP	1.1878	0.377
53DAP/52DAP	0.98824	0.902
55DAP/53DAP	1.28831	0.755
57DAP/55DAP	1.18955	0.906
62DAP/57DAP	1.21821	0.515
68DAP/62DAP	1.04392	1
68DAP/14DAP	0.70507	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.2775	0.018

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.35384	0.69
Immature Eggplant/Mature Eggplant	0.71562	0.064
Ripe Pepper/Ripe Tomato	0.04697	1
Mature Eggplant/Ripe Tomato	3.90002	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93383	0.883
1-1-2/M82	1.18347	1
12-2/M82	1.11761	1
12-4/M82	1.4095	1
1-3/M82	0.77396	0.441
2-1-1/M82	1.26051	0.375
2-1/M82	1.16336	1
2-6/M82	1.10877	0.594
3-2/M82	1.38057	0.717
4-1-1/M82	1.17436	1
4-1/M82	1.1955	1
4-3-2/M82	1.20715	1
4-3/M82	1.02034	1
5-3/M82	0.82074	0.364
6-2/M82	1.18717	1
6-3/M82	1.07576	1
7-1/M82	0.82492	0.466
7-2/M82	1.01924	1
9-3-2/M82	1.34369	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.04214	0.365
IL2-6/WTpooled	1.48206	0.395
IL7-5/WTpooled	1.09278	1
IL7-3/WTpooled	1.03859	1
IL12-4/WTpooled	0.9207	0.581
IL1-4/WTpooled	1.02553	0.426
WT/WTpooled	0.98549	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.85644	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.09765	1
DC3000/delta hrp 24h	1.3156	0.069

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.71228	0.053
DC3000 delta B/DC3000 delta AB	1.16986	0.304

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	5.17749	0.693
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	0.93954	1
Var 0h	1.10918	0.936
Var 12h I row2-row1	0.96539	0.363
Var 12h NI row2-row1	0.87577	0.141
Var 36h I row2-row1	0.95451	1
Var 36h NI row2-row1	1.27044	0.482
Var 60h I row2-row1	0.80863	0.832
Var 60h NI row2-row1	1.33561	0.904
Time course 0hI-0hNI	1.11347	0.852
Time course 12hI-12hNI	0.99626	1
Time course 36hI-36hNI	0.77079	0.052
Time course 60hI-60hNI	0.75896	0.047

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)	0.53583	0.246
transgenic ySAMdc/azygous control (breaker)	1.51522	0.248
transgenic ySAMdc/azygous control (red)	0.62769	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06543	0.317

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.18987	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.60385	1
Manapal/WT (break)	0.28098	0.333
Manapal/WT (red)	0.60547	0.181