Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.2.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2318	0.365
27DAP/17DAP	0.91933	0.843
39DAP/27DAP	1.23662	0.566
41DAP/39DAP	0.86793	0.485
42DAP/41DAP	0.81761	0.774
43DAP/42DAP	0.99878	0.937
47DAP/43DAP	0.86164	0.565
52DAP/47DAP	1.4627	0.24
57DAP/52DAP	1.14217	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02718	0.71
17DAP/reference	1.00701	0.764
27DAP/reference	0.99392	0.822
39DAP/reference	1.01433	0.504
41DAP/reference	0.94588	0.154
42DAP/reference	0.97882	0.188
43DAP/reference	0.98955	0.745
47DAP/reference	0.94726	0.127
52DAP/reference	0.93427	0.283
57DAP/reference	0.92423	0.044

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09702	0.389
27DAP/17DAP	1.11221	0.639
39DAP/27DAP	0.99699	1
41DAP/39DAP	0.96949	0.959
42DAP/41DAP	1.02452	1
43DAP/42DAP	0.81138	0.022
47DAP/43DAP	0.98137	0.843
52DAP/47DAP	0.98445	0.901
57DAP/52DAP	0.99712	0.887
57DAP/7DAP	1.02021	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03312	0.676
17DAP/reference	0.98469	0.447
27DAP/reference	0.98597	0.462
39DAP/reference	0.99492	0.64
41DAP/reference	0.98765	0.449
42DAP/reference	1.018	0.686
43DAP/reference	0.94896	0.066
47DAP/reference	1.01401	0.965
52DAP/reference	0.95092	0.126
57DAP/reference	0.96621	0.109

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06324	0.23
17DAP/reference	1.10877	0.068
27DAP/reference	1.20946	0.062
39DAP/reference	1.13229	0.164
41DAP/reference	1.00281	0.683
42DAP/reference	1.00661	0.723
43DAP/reference	1.12283	0.192
47DAP/reference	0.92517	0.129
52DAP/reference	0.99704	0.713
57DAP/reference	1.01756	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97796	0.169
17DAP/reference	1.00957	1
27DAP/reference	0.9575	0.048
39DAP/reference	0.97068	0.393
41DAP/reference	0.97825	0.264
42DAP/reference	1.00389	0.994
43DAP/reference	0.95708	0.226
47DAP/reference	0.935	0.12
52DAP/reference	0.8712	0.098
57DAP/reference	0.9913	0.693

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07385	0.786
26DAP/20DAP	1.21639	0.325
34DAP/26DAP	0.91678	0.509
51DAP/34DAP	1.17851	0.281
52DAP/51DAP	0.95592	1
53DAP/52DAP	0.91482	0.544
55DAP/53DAP	0.90362	0.563
57DAP/55DAP	1.21185	0.682
62DAP/57DAP	1.34422	0.569
68DAP/62DAP	1.08571	1
68DAP/14DAP	1.98308	0.027

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.73	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.80316	0.257
Mature Green Tomato/Ripe Tomato	2.12676	0.064
Immature Eggplant/Mature Eggplant	1.47697	0.061
Ripe Pepper/Ripe Tomato	1.53016	0.258
Mature Eggplant/Ripe Tomato	2.90578	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04612	1
1-1-2/M82	1.13158	1
12-2/M82	0.94383	0.955
12-4/M82	1.00182	1
1-3/M82	1.19298	1
2-1-1/M82	1.06312	0.439
2-1/M82	1.19858	1
2-6/M82	1.01287	1
3-2/M82	1.05065	0.967
4-1-1/M82	0.88695	1
4-1/M82	0.99886	0.737
4-3-2/M82	0.94696	1
4-3/M82	0.91935	0.72
5-3/M82	1.13305	0.572
6-2/M82	1.05649	1
6-3/M82	1.01581	1
7-1/M82	1.01908	1
7-2/M82	1.05143	1
9-3-2/M82	0.98966	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.78499	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.73287	0.418
IL12-4/WTpooled	0.87597	0.71
IL1-4/WTpooled	1.14262
WT/WTpooled	0.90101	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	1.32356	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.10626	0.758
DC3000/delta hrp 6h	1.12122	1
DC3000/delta hrp 12h	0.9739	1
DC3000/delta hrp 24h	1.04939	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.3742	0.042
DC3000 delta B/DC3000 delta AB	1.29294	0.127

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.17609	0.228
Exp 36h	1.59207	0.349
Exp 60h	2.41127	0.221

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98624	1
Var 0h	1.09038	0.936
Var 12h I row2-row1	1.21024	0.443
Var 12h NI row2-row1	1.12431	1
Var 36h I row2-row1	1.15548	0.339
Var 36h NI row2-row1	0.73569	0.45
Var 60h I row2-row1	0.89872	0.582
Var 60h NI row2-row1	0.93355	0.977
Time course 0hI-0hNI	1.08088	0.537
Time course 12hI-12hNI	1.26003	0.067
Time course 36hI-36hNI	1.9855	0.004
Time course 60hI-60hNI	3.62862	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)	1.07563	0.654
transgenic ySAMdc/azygous control (breaker)	1.26066	0.248
transgenic ySAMdc/azygous control (red)	0.94592	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00646	0.858

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.12484	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.49556	0.172
Manapal/WT (break)	0.74626	1
Manapal/WT (red)	0.57984	0.181