Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.1.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08001	0.927
27DAP/17DAP	0.56347	0.06
39DAP/27DAP	1.02358	0.82
41DAP/39DAP	0.90059	0.675
42DAP/41DAP	1.44185	0.825
43DAP/42DAP	0.88932	0.801
47DAP/43DAP	1.06739	0.895
52DAP/47DAP	1.15418	0.715
57DAP/52DAP	1.305	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0105	0.96
17DAP/reference	1.14489	0.014
27DAP/reference	1.05183	0.52
39DAP/reference	1.05698	0.132
41DAP/reference	1.0903	0.48
42DAP/reference	0.86349	0.029
43DAP/reference	1.03608	0.758
47DAP/reference	0.89925	0.035
52DAP/reference	0.7986	0.069
57DAP/reference	0.72506	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.1699	1
27DAP/17DAP	1.18502
39DAP/27DAP	0.76444	0.029
41DAP/39DAP	1.79909	0.046
42DAP/41DAP	1.32414	0.334
43DAP/42DAP	0.75831	0.137
47DAP/43DAP	0.57923	0.095
52DAP/47DAP	1.67379	0.527
57DAP/52DAP	1.25099	0.963
57DAP/7DAP	0.76409	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10555	0.452
17DAP/reference	1.08046	0.525
27DAP/reference	1.25121	0.035
39DAP/reference	1.73291	0.007
41DAP/reference	1.06101	0.43
42DAP/reference	1.42719	0.016
43DAP/reference	1.40755	0.009
47DAP/reference	1.0594	0.837
52DAP/reference	1.11271	0.526
57DAP/reference	1.10869	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02353	0.823
17DAP/reference	1.05049	0.127
27DAP/reference	0.8846	0.16
39DAP/reference	0.85616	0.122
41DAP/reference	0.89136	0.141
42DAP/reference	0.85145	0.042
43DAP/reference	1.04995	0.641
47DAP/reference	0.96023	0.338
52DAP/reference	0.99052	0.619
57DAP/reference	1.04795	0.269

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07082	0.505
17DAP/reference	1.06967	0.675
27DAP/reference	1.22965	0.085
39DAP/reference	1.11151	0.353
41DAP/reference	1.1486	0.455
42DAP/reference	1.15522	0.47
43DAP/reference	0.94989	0.449
47DAP/reference	0.95026	0.296
52DAP/reference	1.08502	0.566
57DAP/reference	0.58399	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0239	1
26DAP/20DAP	2.82729
34DAP/26DAP	N/A	N/A
51DAP/34DAP	0.90823	0.667
52DAP/51DAP	0.88866	1
53DAP/52DAP	1.43562	0.489
55DAP/53DAP	1.26335	0.712
57DAP/55DAP	1.20328	0.203
62DAP/57DAP	1.14405	0.767
68DAP/62DAP	0.76581	0.095
68DAP/14DAP	0.76757	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.34699	0.7

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.5862	0.188
Mature Green Tomato/Ripe Tomato	0.59165
Immature Eggplant/Mature Eggplant	1.17129
Ripe Pepper/Ripe Tomato	1.07844	1
Mature Eggplant/Ripe Tomato	0.74274	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.80527
1-1-2/M82	0.91717
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	0.90883
5-3/M82	0.90468	1
6-2/M82	N/A	N/A
6-3/M82	0.70068
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	0.79554	1
IL2-6/WTpooled	2.2193	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.0218	1
IL12-4/WTpooled	0.73216	0.71
IL1-4/WTpooled	0.90966	0.834
WT/WTpooled	1.08125	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	1.02756	0.921
DC3000/delta hrp 6h	1.13459	0.95
DC3000/delta hrp 12h	1.00635	1
DC3000/delta hrp 24h	1.06689	0.743

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	0.76811	1
Exp 36h	0.84987	0.699
Exp 60h	0.88608	0.754

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	N/A	N/A
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)	1.04798	0.3
transgenic ySAMdc/azygous control (breaker)	1.14911	0.172
transgenic ySAMdc/azygous control (red)	0.98766	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98418	0.27

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.33942	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.35476	0.096
Manapal/WT (break)	0.93145	1
Manapal/WT (red)	0.91622	0.503