Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.3.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04666	0.904
27DAP/17DAP	0.95467	0.902
39DAP/27DAP	0.94561	0.663
41DAP/39DAP	1.07624	0.758
42DAP/41DAP	1.0041	1
43DAP/42DAP	0.97863	0.91
47DAP/43DAP	1.49772	0.715
52DAP/47DAP	1.17763	0.813
57DAP/52DAP	1.07892	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76573	0.027
17DAP/reference	0.79773	0.138
27DAP/reference	0.93431	0.304
39DAP/reference	1.04772	0.445
41DAP/reference	0.88918	0.114
42DAP/reference	0.69991	0.004
43DAP/reference	0.97441
47DAP/reference	0.74168	0.009
52DAP/reference	1.09796	0.205
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.83839	0.194
27DAP/17DAP	0.8654	0.169
39DAP/27DAP	0.92938	0.54
41DAP/39DAP	1.53769	0.371
42DAP/41DAP	0.97256	0.662
43DAP/42DAP	1.19234	0.23
47DAP/43DAP	1.07831	0.906
52DAP/47DAP	1.28965	0.374
57DAP/52DAP	1.23338	0.357
57DAP/7DAP	1.19354	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10661	0.311
17DAP/reference	1.56826	0.006
27DAP/reference	1.40076	0.007
39DAP/reference	1.51263	0.006
41DAP/reference	1.54858	0.029
42DAP/reference	1.67228	0.007
43DAP/reference	1.62656	0.007
47DAP/reference	1.30427	0.224
52DAP/reference	1.47355	0.007
57DAP/reference	1.50081	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82736	0.079
17DAP/reference	0.67646	0.005
27DAP/reference	0.79497	0.024
39DAP/reference	0.77803	0.01
41DAP/reference	0.9771	0.441
42DAP/reference	0.83578	0.037
43DAP/reference	0.75049	0.029
47DAP/reference	0.82872	0.041
52DAP/reference	0.88224	0.066
57DAP/reference	0.72517	0.011

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12446	0.329
17DAP/reference	1.02004	0.81
27DAP/reference	1.79872	0.023
39DAP/reference	1.57115	0.011
41DAP/reference	1.51192	0.011
42DAP/reference	1.34346	0.049
43DAP/reference	1.29458	0.105
47DAP/reference	0.92675	0.231
52DAP/reference	1.1113	0.657
57DAP/reference	1.29967	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01685	1
26DAP/20DAP	0.9368	1
34DAP/26DAP	0.9419	0.954
51DAP/34DAP	1.15503	0.844
52DAP/51DAP	1.11688	0.873
53DAP/52DAP	1.02981	0.929
55DAP/53DAP	0.95571	0.775
57DAP/55DAP	1.09807	0.823
62DAP/57DAP	N/A	N/A
68DAP/62DAP	2.82499	0.004
68DAP/14DAP	3.03256	0.071

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.94972	0.493

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	0.79887

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.89647
1-1-2/M82	1.40716
12-2/M82	N/A	N/A
12-4/M82	1.04645
1-3/M82	0.87985
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	0.70868
4-1/M82	1.60075
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.03914	1
6-2/M82	1.01069
6-3/M82	1.57638
7-1/M82	N/A	N/A
7-2/M82	0.87832
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85525	0.247
IL2-6/WTpooled	1.0238	1
IL7-5/WTpooled	1.01182	1
IL7-3/WTpooled	0.9855	1
IL12-4/WTpooled	0.87168	0.71
IL1-4/WTpooled	1.00924	1
WT/WTpooled	1.02303	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	3.01034	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03021	0.921
DC3000/delta hrp 6h	1.11067	1
DC3000/delta hrp 12h	0.93204	1
DC3000/delta hrp 24h	0.97844	0.887

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.86018	0.042
DC3000 delta B/DC3000 delta AB	1.20067	0.225

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06372	1
Exp 36h	1.3941	0.693
Exp 60h	1.14312	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	0.85476	1
Var 12h I row2-row1	0.9681	0.948
Var 12h NI row2-row1	0.68063	0.488
Var 36h I row2-row1	0.97617	1
Var 36h NI row2-row1	1.26694	1
Var 60h I row2-row1	1.39313
Var 60h NI row2-row1	0.84145	0.977
Time course 0hI-0hNI	1.04326	0.852
Time course 12hI-12hNI	1.0159	1
Time course 36hI-36hNI	1.69946	0.004
Time course 60hI-60hNI	0.76769	0.026

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)	0.93366	0.662
transgenic ySAMdc/azygous control (breaker)	1.15099	1
transgenic ySAMdc/azygous control (red)	1.19747	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98507	0.393

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.53679	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.59263	0.087
Manapal/WT (break)	2.03956	0.381
Manapal/WT (red)	1.44549	1