Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.15.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07972	1
27DAP/17DAP	0.91534	0.819
39DAP/27DAP	1.02547	0.899
41DAP/39DAP	1.06932	0.676
42DAP/41DAP	1.02809	1
43DAP/42DAP	1.21471	0.831
47DAP/43DAP	1.34397	0.542
52DAP/47DAP	0.94043	0.812
57DAP/52DAP	1.14614	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87228	0.111
17DAP/reference	1.03066	0.442
27DAP/reference	1.01632	0.782
39DAP/reference	1.03276	0.413
41DAP/reference	1.00741	0.963
42DAP/reference	0.90747	0.02
43DAP/reference	1.03123	0.646
47DAP/reference	0.98772	0.503
52DAP/reference	0.94879	0.382
57DAP/reference	0.94481	0.395

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93027	0.47
27DAP/17DAP	1.008	1
39DAP/27DAP	1.16635	0.292
41DAP/39DAP	0.95032	0.875
42DAP/41DAP	0.94534	0.62
43DAP/42DAP	1.12598	0.212
47DAP/43DAP	0.99714	0.99
52DAP/47DAP	1.02103	0.933
57DAP/52DAP	1.13205	0.421
57DAP/7DAP	0.94225	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78076	0.071
17DAP/reference	0.83991	0.035
27DAP/reference	0.80171	0.011
39DAP/reference	0.91505	0.23
41DAP/reference	0.81928	0.029
42DAP/reference	0.96097	0.393
43DAP/reference	0.88547	0.105
47DAP/reference	0.98721	0.671
52DAP/reference	0.88504	0.163
57DAP/reference	0.91397	0.123

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90833	0.257
17DAP/reference	0.90774	0.095
27DAP/reference	0.8404	0.093
39DAP/reference	0.87419	0.156
41DAP/reference	0.90387	0.194
42DAP/reference	0.81987	0.073
43DAP/reference	0.96962	0.552
47DAP/reference	1.03487	0.639
52DAP/reference	0.95586	0.121
57DAP/reference	0.99725	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80516	0.04
17DAP/reference	0.9245	0.389
27DAP/reference	0.82323	0.038
39DAP/reference	0.80556	0.037
41DAP/reference	0.98535	0.682
42DAP/reference	0.93835	0.445
43DAP/reference	1.006	0.827
47DAP/reference	0.98957	0.593
52DAP/reference	0.8551	0.334
57DAP/reference	0.80033	0.098

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98443	1
26DAP/20DAP	0.9794	1
34DAP/26DAP	1.12562	0.819
51DAP/34DAP	1.11186	0.627
52DAP/51DAP	0.88359	1
53DAP/52DAP	1.153	0.25
55DAP/53DAP	0.97646	0.82
57DAP/55DAP	1.13655	0.525
62DAP/57DAP	0.92202	0.681
68DAP/62DAP	0.97786	0.834
68DAP/14DAP	1.07028	0.826

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.85391	0.062

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.70288	0.031
Immature Eggplant/Mature Eggplant	1.167	0.174
Ripe Pepper/Ripe Tomato	0.74423	0.224
Mature Eggplant/Ripe Tomato	0.53189	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.84167	0.536
1-1-2/M82	0.98364	1
12-2/M82	0.98086	1
12-4/M82	0.74307	0.358
1-3/M82	0.87968	1
2-1-1/M82	0.99669	1
2-1/M82	1.02954	1
2-6/M82	0.83309	1
3-2/M82	0.80199	0.752
4-1-1/M82	1.01292	1
4-1/M82	N/A	N/A
4-3-2/M82	0.91659
4-3/M82	0.72927	0.611
5-3/M82	1.05734	1
6-2/M82	0.89317
6-3/M82	1.07937	1
7-1/M82	0.98116	1
7-2/M82	0.76756	0.375
9-3-2/M82	0.69395

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.82593
IL2-6/WTpooled	1.71116	0.395
IL7-5/WTpooled	0.97277	1
IL7-3/WTpooled	0.71686	0.31
IL12-4/WTpooled	1.04745	0.737
IL1-4/WTpooled	1.01846	1
WT/WTpooled	0.98005	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	1.04911	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95948	1
DC3000/delta hrp 6h	0.98832	0.95
DC3000/delta hrp 12h	1.01973	1
DC3000/delta hrp 24h	1.99366	0.023

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.32514	0.355
DC3000 delta B/DC3000 delta AB	1.00652	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8468	0.328
Exp 36h	1.22859	1
Exp 60h	1.24229	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02824	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.32297	0.406
Var 12h NI row2-row1	1.0116	1
Var 36h I row2-row1	1.30681	0.291
Var 36h NI row2-row1	0.75912	0.402
Var 60h I row2-row1	0.94237	0.952
Var 60h NI row2-row1	0.86048	0.516
Time course 0hI-0hNI	0.94862	0.721
Time course 12hI-12hNI	1.08534	0.335
Time course 36hI-36hNI	1.65156	0.006
Time course 60hI-60hNI	1.46184	0.011

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)	1.03119	0.541
transgenic ySAMdc/azygous control (breaker)	1.65557	0.178
transgenic ySAMdc/azygous control (red)	1.02024	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9619	0.131

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.01078	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.8895	1
Manapal/WT (break)	0.99019	1
Manapal/WT (red)	1.18222	0.126