Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.19.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00625	0.858
27DAP/17DAP	1.50642	0.625
39DAP/27DAP	0.92354	0.652
41DAP/39DAP	0.86733	0.53
42DAP/41DAP	0.92004	1
43DAP/42DAP	0.91033	0.829
47DAP/43DAP	1.3329	0.459
52DAP/47DAP	0.77851	0.461
57DAP/52DAP	0.82633	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00793	0.824
17DAP/reference	0.93122	0.321
27DAP/reference	0.93469	0.295
39DAP/reference	1.0618	0.377
41DAP/reference	0.9007	0.154
42DAP/reference	0.98058	0.348
43DAP/reference	0.9082	0.08
47DAP/reference	1.02271	0.937
52DAP/reference	1.03529	1
57DAP/reference	0.93282	0.21

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90239	0.526
27DAP/17DAP	0.94543	0.878
39DAP/27DAP	0.69765	0.043
41DAP/39DAP	1.12606	0.853
42DAP/41DAP	1.00036	0.812
43DAP/42DAP	1.05847	0.788
47DAP/43DAP	1.12487	0.765
52DAP/47DAP	1.20487	0.649
57DAP/52DAP	1.28619	0.308
57DAP/7DAP	0.89876	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.71544	0.071
17DAP/reference	0.86076	0.144
27DAP/reference	0.94186	0.185
39DAP/reference	0.87934	0.198
41DAP/reference	0.80016	0.111
42DAP/reference	1.02734	1
43DAP/reference	0.89208	0.192
47DAP/reference	0.75498	0.168
52DAP/reference	0.79399	0.053
57DAP/reference	0.85957	0.043

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06468	0.642
17DAP/reference	0.88636	0.159
27DAP/reference	0.93427	0.317
39DAP/reference	0.93239	0.173
41DAP/reference	0.85094	0.118
42DAP/reference	0.8323	0.016
43DAP/reference	1.34251	0.226
47DAP/reference	0.90034	0.071
52DAP/reference	0.97609	0.5
57DAP/reference	1.04744	0.908

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89537	0.135
17DAP/reference	0.86015	0.186
27DAP/reference	0.926	0.23
39DAP/reference	0.96691	0.464
41DAP/reference	0.84583	0.077
42DAP/reference	0.90685	0.287
43DAP/reference	0.75319	0.023
47DAP/reference	1.05594	0.63
52DAP/reference	1.04739	0.732
57DAP/reference	0.99171	0.672

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91688	1
26DAP/20DAP	0.77009	0.512
34DAP/26DAP	1.09124	1
51DAP/34DAP	0.87065
52DAP/51DAP	1.59216	0.335
53DAP/52DAP	1.13074	0.819
55DAP/53DAP	1.07039	0.869
57DAP/55DAP	0.94665	0.821
62DAP/57DAP	1.04156	0.935
68DAP/62DAP	0.78636	0.245
68DAP/14DAP	0.76839	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9898	0.814

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	0.57205	0.059
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	5.74947

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.40646
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.25971	0.655
1-3/M82	0.59344
2-1-1/M82	0.86416
2-1/M82	N/A	N/A
2-6/M82	1.01412	1
3-2/M82	0.77315
4-1-1/M82	0.71979
4-1/M82	1.54777
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.95256	1
6-2/M82	N/A	N/A
6-3/M82	0.96879
7-1/M82	0.85391
7-2/M82	0.63478	0.796
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.4426	0.419
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.44301	0.362
IL12-4/WTpooled	1.20132	0.737
IL1-4/WTpooled	0.91955	0.834
WT/WTpooled	1.12597	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	0.92201	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09798	0.846
DC3000/delta hrp 6h	1.10208	0.95
DC3000/delta hrp 12h	0.88963	1
DC3000/delta hrp 24h	1.04734	0.728

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.83704	1
Exp 36h	1.05614	0.943
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	1.0092	1
Var 0h	0.73608	0.332
Var 12h I row2-row1	1.00906	0.473
Var 12h NI row2-row1	0.86003	0.494
Var 36h I row2-row1	0.8925	0.805
Var 36h NI row2-row1	1.01456	1
Var 60h I row2-row1	1.0604	0.562
Var 60h NI row2-row1	0.95372	1
Time course 0hI-0hNI	0.85448	0.927
Time course 12hI-12hNI	1.05527	0.734
Time course 36hI-36hNI	0.69361	0.05
Time course 60hI-60hNI	0.54694	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)	1.13906	0.612
transgenic ySAMdc/azygous control (breaker)	1.08581	1
transgenic ySAMdc/azygous control (red)	0.84944	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95809	0.231

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07581	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.96067	1
Manapal/WT (red)	N/A	N/A