Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.11.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00398	0.919
27DAP/17DAP	1.04186	1
39DAP/27DAP	1.16422	0.956
41DAP/39DAP	1.64366	0.318
42DAP/41DAP	1.35615	0.466
43DAP/42DAP	0.76012	0.454
47DAP/43DAP	0.75415	0.28
52DAP/47DAP	1.5734	0.315
57DAP/52DAP	0.831	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05658	0.093
17DAP/reference	1.0098	0.843
27DAP/reference	0.92987	0.17
39DAP/reference	1.01813	0.639
41DAP/reference	1.02819	0.48
42DAP/reference	1.05074	0.2
43DAP/reference	1.06538	0.133
47DAP/reference	0.93491	0.077
52DAP/reference	0.93253	0.091
57DAP/reference	0.90777	0.071

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90743	0.415
27DAP/17DAP	1.09693	0.686
39DAP/27DAP	1.11944	0.383
41DAP/39DAP	0.80483	0.072
42DAP/41DAP	1.25784	0.005
43DAP/42DAP	1.54991	0.013
47DAP/43DAP	1.01974	0.857
52DAP/47DAP	0.9244	0.271
57DAP/52DAP	0.74822	0.111
57DAP/7DAP	1.38591	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89213	0.1
17DAP/reference	0.82819	0.011
27DAP/reference	0.81513	0.01
39DAP/reference	0.83915	0.011
41DAP/reference	0.86201	0.09
42DAP/reference	0.90762	0.044
43DAP/reference	0.8602	0.017
47DAP/reference	0.94791	0.504
52DAP/reference	0.83841	0.017
57DAP/reference	0.77592	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06145	0.484
17DAP/reference	1.13634	0.161
27DAP/reference	1.01739	1
39DAP/reference	0.97488	0.381
41DAP/reference	1.20098	0.157
42DAP/reference	1.01964	0.863
43DAP/reference	1.2762	0.111
47DAP/reference	1.04044	0.426
52DAP/reference	0.98851	0.576
57DAP/reference	1.25649	0.085

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83003	0.031
17DAP/reference	0.98182	0.681
27DAP/reference	0.84398	0.031
39DAP/reference	0.82244	0.01
41DAP/reference	0.97065	0.56
42DAP/reference	0.97796	0.671
43DAP/reference	0.88624	0.076
47DAP/reference	1.04692	0.63
52DAP/reference	0.80816	0.139
57DAP/reference	0.77375	0.022

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9023	0.915
26DAP/20DAP	0.81587	0.317
34DAP/26DAP	1.14258	0.304
51DAP/34DAP	0.86112	0.18
52DAP/51DAP	1.11446	0.51
53DAP/52DAP	1.23251	0.23
55DAP/53DAP	1.16954	0.653
57DAP/55DAP	1.05728	1
62DAP/57DAP	1.09042	1
68DAP/62DAP	0.90502	0.345
68DAP/14DAP	1.02072	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.54787	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.81257	0.347
Immature Eggplant/Mature Eggplant	4.09128	0.136
Ripe Pepper/Ripe Tomato	0.21411	0.224
Mature Eggplant/Ripe Tomato	0.18912	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03523	0.877
1-1-2/M82	1.10207	1
12-2/M82	1.01868
12-4/M82	0.93651	0.619
1-3/M82	1.17277	0.479
2-1-1/M82	0.87321	0.784
2-1/M82	N/A	N/A
2-6/M82	0.98851	1
3-2/M82	1.04428
4-1-1/M82	0.83188	1
4-1/M82	1.02043	1
4-3-2/M82	0.99418	1
4-3/M82	0.95297	0.72
5-3/M82	1.05507	1
6-2/M82	N/A	N/A
6-3/M82	1.05856
7-1/M82	1.13761
7-2/M82	0.90838	0.57
9-3-2/M82	1.00647	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85435	0.243
IL2-6/WTpooled	1.14358	0.788
IL7-5/WTpooled	0.98639	1
IL7-3/WTpooled	1.18171	1
IL12-4/WTpooled	1.0293	0.891
IL1-4/WTpooled	0.91768	0.834
WT/WTpooled	1.00077	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	1.122	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06649	0.921
DC3000/delta hrp 6h	1.02908	0.95
DC3000/delta hrp 12h	1.15735	1
DC3000/delta hrp 24h	0.91553	0.28

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.87701	0.171
DC3000 delta B/DC3000 delta AB	0.9536	0.529

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01129	1
Exp 36h	0.99256	1
Exp 60h	1.05041	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98596	1
Var 0h	1.15244	1
Var 12h I row2-row1	1.21964	0.283
Var 12h NI row2-row1	0.9913	1
Var 36h I row2-row1	0.88895	1
Var 36h NI row2-row1	0.99864	1
Var 60h I row2-row1	0.9906	0.952
Var 60h NI row2-row1	1.33191	0.904
Time course 0hI-0hNI	0.99091	1
Time course 12hI-12hNI	0.89639	0.204
Time course 36hI-36hNI	0.85608	0.05
Time course 60hI-60hNI	0.98544	1

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)	1.54747	0.287
transgenic ySAMdc/azygous control (breaker)	0.87419	0.49
transgenic ySAMdc/azygous control (red)	0.89789	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03758	0.073

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.15649	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.30826	0.307
Manapal/WT (break)	0.72443	1
Manapal/WT (red)	0.42592	0.181