Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.1.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93538	0.419
27DAP/17DAP	1.00497	1
39DAP/27DAP	0.94488	0.608
41DAP/39DAP	0.97101	0.852
42DAP/41DAP	1.07208	0.929
43DAP/42DAP	0.95362	0.686
47DAP/43DAP	0.9606	0.847
52DAP/47DAP	0.89815	0.695
57DAP/52DAP	1.02496	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00904	1
17DAP/reference	0.88082	0.015
27DAP/reference	0.91226	0.024
39DAP/reference	0.9201	0.054
41DAP/reference	0.87445	0.009
42DAP/reference	1.01963	0.731
43DAP/reference	0.93897	0.061
47DAP/reference	0.9951	0.568
52DAP/reference	1.0274	0.878
57DAP/reference	1.02055	0.901

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9636	0.629
27DAP/17DAP	0.93046	0.39
39DAP/27DAP	1.0309	0.672
41DAP/39DAP	1.06168	0.65
42DAP/41DAP	1.05368	0.559
43DAP/42DAP	0.95203	0.235
47DAP/43DAP	1.01696	0.897
52DAP/47DAP	0.95231	0.746
57DAP/52DAP	1.00981	1
57DAP/7DAP	0.91317

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84302
17DAP/reference	0.90535	0.031
27DAP/reference	0.94621	0.215
39DAP/reference	0.95738	0.011
41DAP/reference	0.90678	0.07
42DAP/reference	0.9152	0.275
43DAP/reference	0.8493	0.011
47DAP/reference	0.72689	0.066
52DAP/reference	0.86379	0.066
57DAP/reference	0.83718	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01206	0.787
17DAP/reference	0.89828	0.176
27DAP/reference	1.04669	0.781
39DAP/reference	0.92978	0.306
41DAP/reference	0.89655	0.108
42DAP/reference	0.97743	0.482
43DAP/reference	0.79911	0.039
47DAP/reference	0.94001	0.105
52DAP/reference	0.97297	0.469
57DAP/reference	0.95041	0.408

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02354	0.918
17DAP/reference	0.91187	0.21
27DAP/reference	0.84284	0.062
39DAP/reference	0.89335	0.018
41DAP/reference	0.77212	0.077
42DAP/reference	0.83842	0.049
43DAP/reference	0.92431	0.348
47DAP/reference	0.82111	0.015
52DAP/reference	0.81112	0.107
57DAP/reference	0.8975	0.058

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04879	0.43
26DAP/20DAP	1.10293	0.647
34DAP/26DAP	1.11592	1
51DAP/34DAP	0.98201	0.883
52DAP/51DAP	1.08534	0.387
53DAP/52DAP	0.89083	0.379
55DAP/53DAP	1.06753	0.798
57DAP/55DAP	0.88111	0.638
62DAP/57DAP	1.13226	0.8
68DAP/62DAP	1.10532	0.813
68DAP/14DAP	1.03354	0.915

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07565	0.591

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.96589	0.611
Immature Eggplant/Mature Eggplant	1.26453	0.198
Ripe Pepper/Ripe Tomato	1.27104
Mature Eggplant/Ripe Tomato	1.60025

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.99815	1
1-1-2/M82	0.9682	1
12-2/M82	0.93543	0.955
12-4/M82	1.00198	1
1-3/M82	0.95019	0.501
2-1-1/M82	0.87305	0.683
2-1/M82	0.9709	1
2-6/M82	0.95646	1
3-2/M82	1.09641	0.967
4-1-1/M82	0.99251	1
4-1/M82	0.9464	1
4-3-2/M82	1.02894
4-3/M82	0.8988	1
5-3/M82	0.99817	1
6-2/M82	0.9885	1
6-3/M82	0.99335	1
7-1/M82	0.94775	0.803
7-2/M82	0.95087	0.881
9-3-2/M82	0.94227	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.77328	0.247
IL2-6/WTpooled	1.48881	0.46
IL7-5/WTpooled	0.83494
IL7-3/WTpooled	1.0046	1
IL12-4/WTpooled	0.96155	1
IL1-4/WTpooled	1.03662	1
WT/WTpooled	1.18911	0.911

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	0.99902	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04674	0.921
DC3000/delta hrp 6h	1.4776	1
DC3000/delta hrp 12h	0.99964	1
DC3000/delta hrp 24h	1.03698	0.655

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08965	0.25
DC3000 delta B/DC3000 delta AB	0.9602	0.657

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.93123	1
Exp 36h	1.25127	0.371
Exp 60h	1.07229	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97464	1
Var 0h	1.08553	0.782
Var 12h I row2-row1	1.23245	0.348
Var 12h NI row2-row1	0.97649	0.906
Var 36h I row2-row1	1.00193	1
Var 36h NI row2-row1	1.03031	1
Var 60h I row2-row1	1.11403	1
Var 60h NI row2-row1	0.92978	0.977
Time course 0hI-0hNI	1.03336	0.867
Time course 12hI-12hNI	1.0006	1
Time course 36hI-36hNI	0.98821	0.589
Time course 60hI-60hNI	1.0513	0.137

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)	1.12648	0.455
transgenic ySAMdc/azygous control (breaker)	1.10708	1
transgenic ySAMdc/azygous control (red)	1.3398	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97944	0.163

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09792	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05477	1
Manapal/WT (break)	0.98134	1
Manapal/WT (red)	1.09743	1