Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.7.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28273	0.477
27DAP/17DAP	1.07817	0.889
39DAP/27DAP	0.69575	0.241
41DAP/39DAP	0.89997	0.617
42DAP/41DAP	1.1706	0.899
43DAP/42DAP	1.0265	1
47DAP/43DAP	1.67676	0.306
52DAP/47DAP	1.17284	0.773
57DAP/52DAP	1.11307	0.995

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80086	0.3
17DAP/reference	0.54364	0.008
27DAP/reference	2.84605
39DAP/reference	0.61692	0.17
41DAP/reference	0.81374	0.341
42DAP/reference	0.91281	0.091
43DAP/reference	1.24598	0.617
47DAP/reference	1.9209	0.666
52DAP/reference	0.91213	0.405
57DAP/reference	0.92125	0.61

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9884	0.801
27DAP/17DAP	1.21932	0.328
39DAP/27DAP	0.80669	0.079
41DAP/39DAP	0.96862	0.968
42DAP/41DAP	1.18607	0.635
43DAP/42DAP	0.93906	0.466
47DAP/43DAP	0.97464	0.855
52DAP/47DAP	0.95833	0.797
57DAP/52DAP	1.14356	0.378
57DAP/7DAP	1.05169

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.5878	0.1
17DAP/reference	0.72631	0.031
27DAP/reference	0.72119	0.016
39DAP/reference	0.63492	0.025
41DAP/reference	0.69436	0.07
42DAP/reference	0.79642	0.033
43DAP/reference	0.86611	0.21
47DAP/reference	0.66962
52DAP/reference	0.66818	0.04
57DAP/reference	0.7492	0.041

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.53472	0.079
17DAP/reference	1.54328	0.496
27DAP/reference	0.57602
39DAP/reference	0.93706	0.404
41DAP/reference	0.82164	0.322
42DAP/reference	0.84	0.081
43DAP/reference	0.76892	0.019
47DAP/reference	1.10287	0.965
52DAP/reference	0.71655	0.093
57DAP/reference	1.05843	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26935
17DAP/reference	1.70992
27DAP/reference	N/A	N/A
39DAP/reference	2.2134
41DAP/reference	2.11464
42DAP/reference	0.50478
43DAP/reference	1.44817	0.465
47DAP/reference	1.41183	0.251
52DAP/reference	1.72224	0.377
57DAP/reference	2.06775	0.053

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.47594
26DAP/20DAP	1.05944	0.834
34DAP/26DAP	1.11091	1
51DAP/34DAP	1.10149	0.898
52DAP/51DAP	1.10208	0.676
53DAP/52DAP	1.11704	0.608
55DAP/53DAP	1.03627	0.981
57DAP/55DAP	1.00602	0.927
62DAP/57DAP	0.67454	0.466
68DAP/62DAP	0.68304	0.579
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.61615	0.05

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.01686
Immature Eggplant/Mature Eggplant	N/A	N/A
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	0.80918
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	1.07029	1
IL2-6/WTpooled	1.12931	0.395
IL7-5/WTpooled	0.96375	1
IL7-3/WTpooled	0.96956	1
IL12-4/WTpooled	1.08164	0.785
IL1-4/WTpooled	0.55208	0.476
WT/WTpooled	1.00758	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	0.99286	1

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	1.02071	0.966

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.78136
DC3000 delta B/DC3000 delta AB	0.86077	0.337

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	0.99906	1
Var 0h	0.98578	1
Var 12h I row2-row1	1.10094	0.692
Var 12h NI row2-row1	1.05312	1
Var 36h I row2-row1	1.19757	0.742
Var 36h NI row2-row1	0.77403	1
Var 60h I row2-row1	0.83637	0.582
Var 60h NI row2-row1	1.0515	0.904
Time course 0hI-0hNI	0.93688	0.548
Time course 12hI-12hNI	1.01509	0.867
Time course 36hI-36hNI	1.01149	0.799
Time course 60hI-60hNI	0.82887	0.015

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)	1.6094	0.13
Manapal/WT (red)	N/A	N/A