Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.16.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96614	0.689
27DAP/17DAP	1.25775	0.755
39DAP/27DAP	1.06109	1
41DAP/39DAP	0.9276	0.715
42DAP/41DAP	0.73091	0.774
43DAP/42DAP	1.37776	0.736
47DAP/43DAP	1.04152	0.904
52DAP/47DAP	1.32284	0.772
57DAP/52DAP	0.70666	0.684

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10066	0.17
17DAP/reference	1.03605	0.675
27DAP/reference	0.95039	0.201
39DAP/reference	0.96607	0.554
41DAP/reference	0.96223	0.434
42DAP/reference	1.04901	0.523
43DAP/reference	0.95955	0.36
47DAP/reference	0.95395	0.279
52DAP/reference	1.06412	0.388
57DAP/reference	1.11389	0.043

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.59926	0.044
27DAP/17DAP	0.98473	0.919
39DAP/27DAP	1.00246	1
41DAP/39DAP	1.64642	0.01
42DAP/41DAP	0.80142	0.106
43DAP/42DAP	1.28252	0.035
47DAP/43DAP	1.24268	0.045
52DAP/47DAP	1.32039	0.31
57DAP/52DAP	2.52494	0.029
57DAP/7DAP	1.29267	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01322	1
17DAP/reference	1.13004	0.399
27DAP/reference	0.95637	0.348
39DAP/reference	0.81882	0.056
41DAP/reference	0.74638	0.036
42DAP/reference	0.89362	0.211
43DAP/reference	0.87586	0.151
47DAP/reference	0.99257	1
52DAP/reference	0.84947	0.013
57DAP/reference	1.12724	0.571

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11288	0.36
17DAP/reference	1.08174	0.406
27DAP/reference	1.13702	0.345
39DAP/reference	0.95445	0.281
41DAP/reference	1.0665	0.573
42DAP/reference	1.04465	0.879
43DAP/reference	0.99755	0.814
47DAP/reference	1.01559	0.841
52DAP/reference	0.97268	0.433
57DAP/reference	0.94354	0.298

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99917	0.75
17DAP/reference	1.0392	0.712
27DAP/reference	0.90316	0.155
39DAP/reference	1.01163	0.889
41DAP/reference	0.83781	0.096
42DAP/reference	0.91922	0.361
43DAP/reference	0.84221	0.188
47DAP/reference	1.01884	0.509
52DAP/reference	0.94772	0.573
57DAP/reference	1.67177	0.014

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95853	1
26DAP/20DAP	0.92046	0.512
34DAP/26DAP	1.07614	1
51DAP/34DAP	0.84264	0.298
52DAP/51DAP	1.19846	0.108
53DAP/52DAP	1.05581	0.806
55DAP/53DAP	1.03924	0.989
57DAP/55DAP	0.90625	0.601
62DAP/57DAP	1.12666	0.767
68DAP/62DAP	1.09154	0.869
68DAP/14DAP	1.2493	0.189

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.65541	0.016

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.3276	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.48229	0.224
Mature Eggplant/Ripe Tomato	0.2835

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	1.07481
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	N/A	N/A
IL2-6/WTpooled	1.41993
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.11437	1
IL12-4/WTpooled	1.26291	0.695
IL1-4/WTpooled	0.88308	0.562
WT/WTpooled	1.10539	0.686

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	1.27336	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	2.69806
DC3000/delta hrp 6h	0.9923	0.95
DC3000/delta hrp 12h	0.9135	1
DC3000/delta hrp 24h	2.43193	0.038

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11143
DC3000 delta B/DC3000 delta AB	1.17857	0.437

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99527	1
Exp 36h	0.92607	0.82
Exp 60h	0.94815	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99318	1
Var 0h	0.86622	0.933
Var 12h I row2-row1	0.97484	0.856
Var 12h NI row2-row1	0.71602	0.627
Var 36h I row2-row1	0.96335	0.805
Var 36h NI row2-row1	0.80172	0.584
Var 60h I row2-row1	0.81627	0.439
Var 60h NI row2-row1	0.98344	1
Time course 0hI-0hNI	1.11172	0.413
Time course 12hI-12hNI	1.08286	0.65
Time course 36hI-36hNI	1.49732	0.006
Time course 60hI-60hNI	1.38781	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)	1.53326	0.347
transgenic ySAMdc/azygous control (breaker)	0.51993	0.142
transgenic ySAMdc/azygous control (red)	1.18964	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00859	0.556

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.58358	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03543	1
Manapal/WT (break)	1.20965	1
Manapal/WT (red)	1.02293	1