Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.14.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31728	0.602
27DAP/17DAP	0.73449	0.293
39DAP/27DAP	1.15243	1
41DAP/39DAP	1.04269	0.549
42DAP/41DAP	1.26225	0.908
43DAP/42DAP	1.61647	0.726
47DAP/43DAP	0.76896	0.369
52DAP/47DAP	1.5353	0.525
57DAP/52DAP	1.57829	0.262

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.83933
17DAP/reference	0.92746	0.777
27DAP/reference	0.7055	0.176
39DAP/reference	0.4789
41DAP/reference	1.42946	0.48
42DAP/reference	1.67672	0.006
43DAP/reference	0.6182
47DAP/reference	1.5505	0.001
52DAP/reference	0.78093	0.096
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89543	0.251
27DAP/17DAP	1.10559	0.751
39DAP/27DAP	0.87932	0.377
41DAP/39DAP	1.24877	0.129
42DAP/41DAP	0.91373	0.486
43DAP/42DAP	1.21623	0.066
47DAP/43DAP	0.98089	0.902
52DAP/47DAP	0.77481	0.143
57DAP/52DAP	1.20034	0.286
57DAP/7DAP	1.15309	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.48719	0.032
17DAP/reference	1.06432	0.688
27DAP/reference	0.98295	0.53
39DAP/reference	0.98859	0.64
41DAP/reference	0.98878	0.619
42DAP/reference	1.00883	0.791
43DAP/reference	1.10755	0.043
47DAP/reference	0.89055	0.504
52DAP/reference	1.13791	0.459
57DAP/reference	0.98325	0.494

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.43152	0.463
17DAP/reference	1.46015	0.127
27DAP/reference	0.66599	0.393
39DAP/reference	1.232	0.514
41DAP/reference	N/A	N/A
42DAP/reference	N/A	N/A
43DAP/reference	1.09497	0.503
47DAP/reference	1.19371	0.556
52DAP/reference	0.95372	0.5
57DAP/reference	1.33724	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30472	0.025
17DAP/reference	1.01332	0.87
27DAP/reference	0.89478	0.133
39DAP/reference	1.01971	0.962
41DAP/reference	0.94547	0.032
42DAP/reference	1.18628	0.074
43DAP/reference	1.16816	0.625
47DAP/reference	N/A	N/A
52DAP/reference	1.60064	0.105
57DAP/reference	1.15473	0.902

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.77365	0.89
26DAP/20DAP	1.3907	0.176
34DAP/26DAP	1.2236	1
51DAP/34DAP	1.09514	0.55
52DAP/51DAP	0.89472	1
53DAP/52DAP	1.24893	0.444
55DAP/53DAP	0.88306	0.325
57DAP/55DAP	1.08617	0.947
62DAP/57DAP	0.54018	0.28
68DAP/62DAP	1.15348
68DAP/14DAP	1.19082

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12529	0.865

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	0.97541
Mature Eggplant/Ripe Tomato	0.58096

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	N/A	N/A
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	1.06124	1
IL2-6/WTpooled	0.97752	1
IL7-5/WTpooled	0.89558	0.559
IL7-3/WTpooled	1.07667	1
IL12-4/WTpooled	1.27195	0.673
IL1-4/WTpooled	1.0842	1
WT/WTpooled	1.06733	0.999

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	1.22625	0.853

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	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.25923	0.279

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	1.054	1
Var 0h	0.95187	0.933
Var 12h I row2-row1	0.93319	0.705
Var 12h NI row2-row1	1.03955	1
Var 36h I row2-row1	1.13037	0.601
Var 36h NI row2-row1	0.72201	0.478
Var 60h I row2-row1	0.95049	0.952
Var 60h NI row2-row1	0.6151	0.408
Time course 0hI-0hNI	1.04227	0.852
Time course 12hI-12hNI	0.97125	0.831
Time course 36hI-36hNI	1.23523	0.056
Time course 60hI-60hNI	2.83955	0.008

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)	1.16951	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A