Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.2.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78238	0.105
27DAP/17DAP	0.8774	0.704
39DAP/27DAP	1.28026	0.699
41DAP/39DAP	1.11026	0.929
42DAP/41DAP	0.95717	1
43DAP/42DAP	0.9596	0.895
47DAP/43DAP	0.74144	0.242
52DAP/47DAP	1.10369	0.942
57DAP/52DAP	1.12902	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93706	0.362
17DAP/reference	0.90854	0.224
27DAP/reference	0.98718	0.741
39DAP/reference	0.92879	0.276
41DAP/reference	0.8785	0.201
42DAP/reference	1.01178	0.707
43DAP/reference	1.07912	0.73
47DAP/reference	1.12911	0.093
52DAP/reference	1.09666	0.548
57DAP/reference	0.76293	0.176

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.10455	0.431
27DAP/17DAP	1.01959	0.967
39DAP/27DAP	0.78959	0.035
41DAP/39DAP	0.99681	1
42DAP/41DAP	1.17508	0.74
43DAP/42DAP	1.07193	0.699
47DAP/43DAP	0.94219	0.677
52DAP/47DAP	0.9809	0.907
57DAP/52DAP	1.03401	1
57DAP/7DAP	1.35599

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04933	0.625
17DAP/reference	1.12541	0.399
27DAP/reference	0.91325	0.088
39DAP/reference	0.97701	0.474
41DAP/reference	1.07899	0.577
42DAP/reference	1.21289	0.076
43DAP/reference	0.97301	0.459
47DAP/reference	1.47328	0.096
52DAP/reference	0.94788	0.332
57DAP/reference	1.09704	0.468

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83143	0.115
17DAP/reference	1.15868	0.471
27DAP/reference	1.51161	0.017
39DAP/reference	1.55908	0.013
41DAP/reference	1.31317	0.006
42DAP/reference	1.32846	0.011
43DAP/reference	1.06494	0.761
47DAP/reference	1.254	0.008
52DAP/reference	1.28371	0.009
57DAP/reference	0.97046	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1909	0.138
17DAP/reference	1.0466	0.689
27DAP/reference	0.95003	0.465
39DAP/reference	1.04428	0.546
41DAP/reference	1.13563	0.383
42DAP/reference	1.2582	0.142
43DAP/reference	1.17673	0.565
47DAP/reference	1.21126	0.279
52DAP/reference	0.84358	0.167
57DAP/reference	1.60734	0.008

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.11079	0.945
26DAP/20DAP	0.84182	0.512
34DAP/26DAP	1.01225	1
51DAP/34DAP	0.64565
52DAP/51DAP	1.3303	0.733
53DAP/52DAP	1.42363	0.413
55DAP/53DAP	1.20189	0.722
57DAP/55DAP	1.02434	0.975
62DAP/57DAP	1.06598	1
68DAP/62DAP	1.34661	0.1
68DAP/14DAP	1.45537	0.153

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03616	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.5104	0.068
Mature Green Tomato/Ripe Tomato	3.06353	0.018
Immature Eggplant/Mature Eggplant	1.07958	0.58
Ripe Pepper/Ripe Tomato	0.4417	0.224
Mature Eggplant/Ripe Tomato	0.68613	1

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	0.97363	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	0.97215
3-2/M82	0.69553
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	0.9348	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.84574	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	0.6448	0.337
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.29864	1
IL12-4/WTpooled	1.07395	0.839
IL1-4/WTpooled	0.83022
WT/WTpooled	1.04714	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	0.71149	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06222	0.921
DC3000/delta hrp 6h	0.89407	0.95
DC3000/delta hrp 12h	1.05644	1
DC3000/delta hrp 24h	0.94488	0.642

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.61813	0.023
DC3000 delta B/DC3000 delta AB	0.33965	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98021	1
Exp 36h	0.83911	0.456
Exp 60h	0.84557	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99631	1
Var 0h	0.84039	1
Var 12h I row2-row1	0.81241	0.418
Var 12h NI row2-row1	1.03627	1
Var 36h I row2-row1	0.85293	0.805
Var 36h NI row2-row1	1.21816	1
Var 60h I row2-row1	1.27126
Var 60h NI row2-row1	1.03524	1
Time course 0hI-0hNI	0.99117	1
Time course 12hI-12hNI	0.90285	0.108
Time course 36hI-36hNI	0.82294	0.023
Time course 60hI-60hNI	0.16518	0.005

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)	0.97158	0.722
transgenic ySAMdc/azygous control (breaker)	0.56914	0.131
transgenic ySAMdc/azygous control (red)	0.84903	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.28217	0.054

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.07926	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.67709	0.172
Manapal/WT (break)	1.00983	1
Manapal/WT (red)	1.24945	1