Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.5.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18093	0.545
27DAP/17DAP	0.99832	0.952
39DAP/27DAP	1.27293	1
41DAP/39DAP	0.46856	0.042
42DAP/41DAP	1.80024	0.66
43DAP/42DAP	1.17216	0.937
47DAP/43DAP	1.09797	0.999
52DAP/47DAP	1.94421	0.516
57DAP/52DAP	1.22399	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1406	0.662
17DAP/reference	1.25517	0.027
27DAP/reference	0.99236	0.623
39DAP/reference	1.33826	0.083
41DAP/reference	1.26273	0.312
42DAP/reference	1.63328	0.001
43DAP/reference	1.35823	0.008
47DAP/reference	1.84386	0.001
52DAP/reference	1.1915	0.272
57DAP/reference	1.17231	0.724

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.53283	0.117
27DAP/17DAP	0.86152	0.748
39DAP/27DAP	0.92753	0.754
41DAP/39DAP	0.52711	0.101
42DAP/41DAP	2.30308	0.021
43DAP/42DAP	1.16785	0.079
47DAP/43DAP	0.74671	0.617
52DAP/47DAP	0.64707	0.179
57DAP/52DAP	0.7646	0.541
57DAP/7DAP	0.9685	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8026	0.168
17DAP/reference	0.97208	0.447
27DAP/reference	0.91119	0.283
39DAP/reference	0.91628	0.264
41DAP/reference	0.96687	0.489
42DAP/reference	1.00435	0.641
43DAP/reference	1.04973	0.802
47DAP/reference	0.73669	0.383
52DAP/reference	1.00132	0.679
57DAP/reference	1.07544	0.571

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.65832	0.009
17DAP/reference	2.46875
27DAP/reference	0.95356	0.619
39DAP/reference	0.93549	0.159
41DAP/reference	1.94383	0.149
42DAP/reference	0.70001
43DAP/reference	1.19435	0.515
47DAP/reference	0.39463	0.02
52DAP/reference	0.89088	0.28
57DAP/reference	0.94073	0.318

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.412	0.015
17DAP/reference	0.74566
27DAP/reference	N/A	N/A
39DAP/reference	1.01256	1
41DAP/reference	0.85905	0.512
42DAP/reference	1.16132
43DAP/reference	0.94366	0.334
47DAP/reference	N/A	N/A
52DAP/reference	0.99093	0.888
57DAP/reference	1.00034	0.933

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	N/A	N/A
26DAP/20DAP	1.37634	0.839
34DAP/26DAP	0.9311	0.944
51DAP/34DAP	0.90948	0.649
52DAP/51DAP	1.63204	0.792
53DAP/52DAP	10.7645
55DAP/53DAP	1.67964	0.555
57DAP/55DAP	2.01869	0.066
62DAP/57DAP	1.6354	0.002
68DAP/62DAP	N/A	N/A
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	N/A	N/A

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.73818
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	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
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	0.80497
IL2-6/WTpooled	0.87079
IL7-5/WTpooled	0.5626
IL7-3/WTpooled	1.00613	1
IL12-4/WTpooled	1.03259	0.785
IL1-4/WTpooled	1.23029
WT/WTpooled	0.96193	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	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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	1.05831	0.936
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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A