Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.4.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07776	0.893
27DAP/17DAP	0.80408	0.467
39DAP/27DAP	1.12829	0.899
41DAP/39DAP	1.6231	0.236
42DAP/41DAP	1.5995	0.843
43DAP/42DAP	1.02643	0.937
47DAP/43DAP	0.91357	0.613
52DAP/47DAP	1.87003	0.538
57DAP/52DAP	0.78433	0.754

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94332	0.277
17DAP/reference	0.96032	0.26
27DAP/reference	0.93466	0.17
39DAP/reference	1.0385	0.486
41DAP/reference	0.98266	0.667
42DAP/reference	0.92826	0.075
43DAP/reference	1.16967	0.013
47DAP/reference	0.95786	0.161
52DAP/reference	0.92259	0.25
57DAP/reference	0.87724	0.068

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86819	0.158
27DAP/17DAP	1.27805	0.167
39DAP/27DAP	0.9976	1
41DAP/39DAP	1.05255	0.895
42DAP/41DAP	0.95117	0.644
43DAP/42DAP	1.14342	0.297
47DAP/43DAP	0.99058	0.954
52DAP/47DAP	1.12481	0.603
57DAP/52DAP	1.21042	0.455
57DAP/7DAP	1.42109	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8415	0.115
17DAP/reference	0.8352	0.039
27DAP/reference	0.93521	0.101
39DAP/reference	0.77367	0.011
41DAP/reference	0.73058	0.017
42DAP/reference	0.80005	0.011
43DAP/reference	0.67231	0.013
47DAP/reference	0.8352	0.222
52DAP/reference	0.65592	0.012
57DAP/reference	0.6902	0.014

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14713	0.224
17DAP/reference	1.00699	1
27DAP/reference	1.04506	0.822
39DAP/reference	0.89716	0.097
41DAP/reference	1.02961	1
42DAP/reference	0.90408	0.081
43DAP/reference	1.33636	0.119
47DAP/reference	1.00085	0.79
52DAP/reference	1.08658	0.528
57DAP/reference	1.17135	0.908

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86035	0.082
17DAP/reference	0.97143	0.636
27DAP/reference	0.74864	0.039
39DAP/reference	0.73793	0.022
41DAP/reference	0.84586	0.064
42DAP/reference	0.87939	0.041
43DAP/reference	0.79606	0.03
47DAP/reference	1.10833	0.228
52DAP/reference	0.81027	0.186
57DAP/reference	0.84223	0.171

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.92862	1
26DAP/20DAP	1.60772	0.103
34DAP/26DAP	0.87409	0.763
51DAP/34DAP	1.90883	0.039
52DAP/51DAP	1.12079	0.146
53DAP/52DAP	1.02541	0.921
55DAP/53DAP	1.10709	0.599
57DAP/55DAP	1.11073	0.745
62DAP/57DAP	1.28441	0.569
68DAP/62DAP	0.83944	0.668
68DAP/14DAP	0.90493	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87044	0.211

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.80986	0.261
Mature Green Tomato/Ripe Tomato	1.13499	0.835
Immature Eggplant/Mature Eggplant	0.8356	0.197
Ripe Pepper/Ripe Tomato	1.7292	1
Mature Eggplant/Ripe Tomato	1.6772	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01169	1
1-1-2/M82	0.84302	1
12-2/M82	1.17582	1
12-4/M82	0.9448	1
1-3/M82	0.95475	0.441
2-1-1/M82	0.9343	0.92
2-1/M82	N/A	N/A
2-6/M82	1.18066	0.695
3-2/M82	N/A	N/A
4-1-1/M82	1.23224	1
4-1/M82	0.99681	1
4-3-2/M82	1.12575
4-3/M82	0.94267
5-3/M82	0.91748	0.642
6-2/M82	0.7565
6-3/M82	0.98723	1
7-1/M82	0.96425
7-2/M82	1.02195	1
9-3-2/M82	1.03601

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.91965	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.05795	1
IL12-4/WTpooled	1.10756	0.523
IL1-4/WTpooled	0.85994
WT/WTpooled	1.04776	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	1.01929	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05483	0.921
DC3000/delta hrp 6h	0.86497	0.95
DC3000/delta hrp 12h	1.16164	1
DC3000/delta hrp 24h	1.03975	0.62

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.54987	0.042
DC3000 delta B/DC3000 delta AB	1.74156	0.071

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95999	1
Exp 36h	1.09586	0.693
Exp 60h	1.04038	1

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	1.07199	0.339
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)	1.1206	0.297
transgenic ySAMdc/azygous control (breaker)	1.546	0.162
transgenic ySAMdc/azygous control (red)	0.97651	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09215	0.089

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8853	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0127	1
Manapal/WT (break)	1.45764	0.123
Manapal/WT (red)	1.13012	1