Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.13.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03352	0.876
27DAP/17DAP	1.17254	0.825
39DAP/27DAP	0.94616	0.663
41DAP/39DAP	1.32794	0.356
42DAP/41DAP	1.43223	0.863
43DAP/42DAP	1.1328	0.929
47DAP/43DAP	1.33503	0.809
52DAP/47DAP	1.09021	0.982
57DAP/52DAP	1.19371	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95494	0.352
17DAP/reference	0.9255	0.278
27DAP/reference	1.02986	0.806
39DAP/reference	1.06292	0.771
41DAP/reference	0.84267	0.026
42DAP/reference	0.91792	0.103
43DAP/reference	1.01347	0.882
47DAP/reference	0.92808	0.148
52DAP/reference	0.90941	0.23
57DAP/reference	1.08807	0.159

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20329	0.5
27DAP/17DAP	0.97205	0.943
39DAP/27DAP	0.95221	0.784
41DAP/39DAP	0.97703	0.997
42DAP/41DAP	1.01341	0.894
43DAP/42DAP	1.13188	0.627
47DAP/43DAP	1.40049	0.61
52DAP/47DAP	1.04692	0.844
57DAP/52DAP	1.38674	0.35
57DAP/7DAP	0.81294	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04419	0.961
17DAP/reference	1.08327	0.971
27DAP/reference	1.16503	0.301
39DAP/reference	0.9676	0.474
41DAP/reference	0.99718	0.709
42DAP/reference	1.13082	0.308
43DAP/reference	1.224	0.289
47DAP/reference	0.96549	0.293
52DAP/reference	1.05055	1
57DAP/reference	1.00388	0.748

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04539	1
17DAP/reference	0.94133	0.367
27DAP/reference	0.81269	0.018
39DAP/reference	0.86811	0.144
41DAP/reference	1.05111	0.781
42DAP/reference	0.93622	0.321
43DAP/reference	1.0426	1
47DAP/reference	1.05934	0.675
52DAP/reference	0.87931	0.101
57DAP/reference	0.85422	0.024

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93243	0.268
17DAP/reference	0.99864	0.839
27DAP/reference	1.08642	0.298
39DAP/reference	1.1614	0.275
41DAP/reference	0.96675	0.56
42DAP/reference	1.01914	1
43DAP/reference	0.9212	0.384
47DAP/reference	0.93508	0.357
52DAP/reference	1.78916	0.22
57DAP/reference	1.18349	0.636

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.10076	0.916
26DAP/20DAP	0.47654	0.512
34DAP/26DAP	1.49202	1
51DAP/34DAP	0.99546	0.917
52DAP/51DAP	2.24137
53DAP/52DAP	1.10152	0.961
55DAP/53DAP	0.90924	0.648
57DAP/55DAP	0.85686	0.545
62DAP/57DAP	1.02303	1
68DAP/62DAP	1.51162	0.533
68DAP/14DAP	0.70166	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.23936	0.466

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	3.8309	0.015
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.9001
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.60504
1-1-2/M82	1.08023	1
12-2/M82	1.70786
12-4/M82	1.07464	1
1-3/M82	0.61727	0.441
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.13164
3-2/M82	0.67362
4-1-1/M82	N/A	N/A
4-1/M82	2.72003
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.17227
6-2/M82	0.40333
6-3/M82	0.995
7-1/M82	N/A	N/A
7-2/M82	0.6782	0.796
9-3-2/M82	0.81957

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.09699
IL2-6/WTpooled	1.0873	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.04653	1
IL12-4/WTpooled	1.11309	0.538
IL1-4/WTpooled	1.28417	1
WT/WTpooled	0.93899	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	1.32644	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98068	1
DC3000/delta hrp 6h	0.93455	0.95
DC3000/delta hrp 12h	1.05053	1
DC3000/delta hrp 24h	1.14729	0.088

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	0.14413

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01487	1
Exp 36h	0.73491	0.321
Exp 60h	0.82235	0.251

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04457	1
Var 0h	1.11286	0.782
Var 12h I row2-row1	1.03924	0.736
Var 12h NI row2-row1	0.93674	0.713
Var 36h I row2-row1	0.89384	1
Var 36h NI row2-row1	0.78372	0.45
Var 60h I row2-row1	0.85906	0.374
Var 60h NI row2-row1	1.02174	1
Time course 0hI-0hNI	0.93474	0.552
Time course 12hI-12hNI	0.91499	0.41
Time course 36hI-36hNI	0.76322	0.073
Time course 60hI-60hNI	0.97699	0.646

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)	0.8603	0.267
transgenic ySAMdc/azygous control (breaker)	1.08317	1
transgenic ySAMdc/azygous control (red)	1.10787	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9721	0.12

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03043	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.89309	1
Manapal/WT (break)	0.87866	0.333
Manapal/WT (red)	N/A	N/A