Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.12.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.77099	0.07
27DAP/17DAP	1.96617	0.833
39DAP/27DAP	0.88053	0.67
41DAP/39DAP	0.98193	0.833
42DAP/41DAP	1.43187	0.926
43DAP/42DAP	1.34865	0.873
47DAP/43DAP	0.66544	0.205
52DAP/47DAP	0.89524	0.72
57DAP/52DAP	2.32229	0.987

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.449	0.024
17DAP/reference	0.6188	0.019
27DAP/reference	0.83337	0.201
39DAP/reference	1.40558	0.386
41DAP/reference	1.19583	0.312
42DAP/reference	2.05841	0.001
43DAP/reference	4.54479	0.006
47DAP/reference	6.71399	0.001
52DAP/reference	5.18996	0.007
57DAP/reference	4.09934	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	N/A	N/A
27DAP/17DAP	1.08298	1
39DAP/27DAP	N/A	N/A
41DAP/39DAP	N/A	N/A
42DAP/41DAP	1.64379	0.149
43DAP/42DAP	0.85089	0.597
47DAP/43DAP	1.9413	0.563
52DAP/47DAP	1.21805
57DAP/52DAP	0.66616	0.467
57DAP/7DAP	0.72163	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.34048	0.056
17DAP/reference	0.33178	0.011
27DAP/reference	0.57327	0.01
39DAP/reference	0.47032	0.011
41DAP/reference	0.47956	0.01
42DAP/reference	0.4987	0.01
43DAP/reference	0.69148	0.011
47DAP/reference	0.83119	0.101
52DAP/reference	0.54295	0.011
57DAP/reference	0.60592	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.49927	0.008
17DAP/reference	0.59912	0.008
27DAP/reference	0.96499	0.501
39DAP/reference	1.03558	1
41DAP/reference	0.78845	0.033
42DAP/reference	0.92102	0.355
43DAP/reference	0.6887	0.018
47DAP/reference	1.21239	0.332
52DAP/reference	0.82122	0.101
57DAP/reference	0.90754	0.278

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.42156	0.035
17DAP/reference	0.69765	0.146
27DAP/reference	0.41967	0.022
39DAP/reference	0.78539	0.063
41DAP/reference	0.59287	0.018
42DAP/reference	1.40213	0.047
43DAP/reference	2.71363	0.008
47DAP/reference	4.55247	0.005
52DAP/reference	3.56538	0.028
57DAP/reference	4.86263	0.007

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.52902
26DAP/20DAP	N/A	N/A
34DAP/26DAP	N/A	N/A
51DAP/34DAP	1.04037	0.901
52DAP/51DAP	0.8508
53DAP/52DAP	1.93441	0.035
55DAP/53DAP	1.35066	0.681
57DAP/55DAP	1.17081	0.881
62DAP/57DAP	1.03441	1
68DAP/62DAP	0.85768	0.722
68DAP/14DAP	1.03644	0.85

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.69991	0.422

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.27244	0.062
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	1.02786	0.633
Ripe Pepper/Ripe Tomato	0.42756	0.224
Mature Eggplant/Ripe Tomato	0.1693

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	0.91675
IL2-6/WTpooled	1.10304	0.788
IL7-5/WTpooled	0.83501
IL7-3/WTpooled	0.9775	1
IL12-4/WTpooled	0.83779	0.71
IL1-4/WTpooled	0.87376	0.834
WT/WTpooled	0.97621	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	1.14532	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)	1.01752	0.863
transgenic ySAMdc/azygous control (breaker)	0.69125	0.251
transgenic ySAMdc/azygous control (red)	1.15064	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96248	0.22

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)	1.10471	1
Manapal/WT (break)	1.26312	1
Manapal/WT (red)	N/A	N/A