Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.7.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92172	0.61
27DAP/17DAP	1.03123	1
39DAP/27DAP	0.93789	0.641
41DAP/39DAP	1.62805	0.356
42DAP/41DAP	1.16606	0.876
43DAP/42DAP	1.10846	1
47DAP/43DAP	1.06624	0.999
52DAP/47DAP	0.97319	0.875
57DAP/52DAP	0.88786	0.879

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89415	0.159
17DAP/reference	1.02673	0.717
27DAP/reference	1.02383	0.831
39DAP/reference	0.95406	0.324
41DAP/reference	0.97307	0.667
42DAP/reference	0.86284	0.011
43DAP/reference	0.94387	0.429
47DAP/reference	0.92536	0.127
52DAP/reference	0.90357	0.125
57DAP/reference	0.94137	0.34

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0472	1
27DAP/17DAP	1.0154	0.976
39DAP/27DAP	1.01022	1
41DAP/39DAP	0.82917	0.142
42DAP/41DAP	1.04783	0.81
43DAP/42DAP	0.83384	0.235
47DAP/43DAP	1.43941	0.581
52DAP/47DAP	0.97839	0.919
57DAP/52DAP	1.0767	0.674
57DAP/7DAP	0.80203	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00566	0.613
17DAP/reference	0.95205	0.389
27DAP/reference	1.18409	0.371
39DAP/reference	0.93469	0.354
41DAP/reference	0.99635	0.677
42DAP/reference	0.7276	0.021
43DAP/reference	1.10987	0.212
47DAP/reference	0.88763	0.293
52DAP/reference	0.99795	0.679
57DAP/reference	1.0411	0.966

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02767	0.842
17DAP/reference	0.89714	0.239
27DAP/reference	0.92965	0.282
39DAP/reference	1.10404	0.412
41DAP/reference	1.0044	0.631
42DAP/reference	0.86956	0.121
43DAP/reference	0.87144	0.077
47DAP/reference	0.89517	0.116
52DAP/reference	0.94187	0.407
57DAP/reference	1.10265	0.334

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21698	0.185
17DAP/reference	0.86823	0.205
27DAP/reference	1.17056	0.105
39DAP/reference	0.9388	0.246
41DAP/reference	0.96829	0.56
42DAP/reference	0.99373	0.816
43DAP/reference	0.96282	0.503
47DAP/reference	1.02642	1
52DAP/reference	1.22792	0.182
57DAP/reference	0.92329	0.366

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00233	1
26DAP/20DAP	1.18803	0.663
34DAP/26DAP	0.99485	1
51DAP/34DAP	1.09163	0.854
52DAP/51DAP	0.98415	1
53DAP/52DAP	1.04681	0.921
55DAP/53DAP	0.6666	0.243
57DAP/55DAP	1.46689	0.492
62DAP/57DAP	0.82908
68DAP/62DAP	0.73108
68DAP/14DAP	1.14343	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.67404	0.042

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.79437	0.021
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.70639
Mature Eggplant/Ripe Tomato	1.55655	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.15738
1-1-2/M82	1.08881	1
12-2/M82	N/A	N/A
12-4/M82	0.89993	1
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	0.79775	0.698
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	1.27526
9-3-2/M82	0.74507	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.15866	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.22763	1
IL12-4/WTpooled	1.10693	0.737
IL1-4/WTpooled	0.97674
WT/WTpooled	0.95939	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	0.89945	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06461	0.914
DC3000/delta hrp 6h	0.63608	0.95
DC3000/delta hrp 12h	0.92575	1
DC3000/delta hrp 24h	0.92533	0.761

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	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	1.2334	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.95408	0.933
Var 12h I row2-row1	0.8925	0.627
Var 12h NI row2-row1	1.34754	1
Var 36h I row2-row1	1.08843	1
Var 36h NI row2-row1	0.63105	0.225
Var 60h I row2-row1	1.16407	0.347
Var 60h NI row2-row1	1.15223	0.904
Time course 0hI-0hNI	1.00706	1
Time course 12hI-12hNI	0.95844	0.746
Time course 36hI-36hNI	1.0389	0.799
Time course 60hI-60hNI	1.16194	0.359

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)	0.79088	0.239
transgenic ySAMdc/azygous control (breaker)	0.80391	0.15
transgenic ySAMdc/azygous control (red)	1	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.06062	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88117	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.40352	0.083
Manapal/WT (break)	1.11642	1
Manapal/WT (red)	1.25702	0.413