Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.14.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07307	0.851
27DAP/17DAP	0.88773	0.69
39DAP/27DAP	1.04423	0.972
41DAP/39DAP	0.97355	0.89
42DAP/41DAP	1.32606	0.696
43DAP/42DAP	0.80133	0.709
47DAP/43DAP	1.09102	0.864
52DAP/47DAP	1.44314	0.608
57DAP/52DAP	0.83765	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97395	0.539
17DAP/reference	0.98646	0.777
27DAP/reference	0.98926	0.725
39DAP/reference	0.96123	0.404
41DAP/reference	0.90016	0.154
42DAP/reference	0.93556	0.033
43DAP/reference	0.96763	0.631
47DAP/reference	0.97438	0.418
52DAP/reference	1.0677	0.242
57DAP/reference	1.05803	0.405

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04874	0.934
27DAP/17DAP	1.01447	1
39DAP/27DAP	0.96213	0.747
41DAP/39DAP	1.13593	0.663
42DAP/41DAP	0.98993	0.853
43DAP/42DAP	0.88819	0.256
47DAP/43DAP	1.06986	0.805
52DAP/47DAP	1.0649	0.826
57DAP/52DAP	1.36793	0.11
57DAP/7DAP	1.29415	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92626	0.091
17DAP/reference	0.90751	0.016
27DAP/reference	0.91079	0.02
39DAP/reference	0.94103	0.073
41DAP/reference	0.96186	0.223
42DAP/reference	0.87458	0.16
43DAP/reference	0.94152	0.061
47DAP/reference	0.89845	0.168
52DAP/reference	0.90035	0.035
57DAP/reference	0.88106	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05958	0.65
17DAP/reference	1.071	1
27DAP/reference	1.08572	0.488
39DAP/reference	0.91239	0.289
41DAP/reference	1.06807	0.513
42DAP/reference	1.06581	0.543
43DAP/reference	0.94911	0.459
47DAP/reference	0.90933	0.164
52DAP/reference	0.8593	0.02
57DAP/reference	0.86667	0.169

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92338	0.068
17DAP/reference	1.06187	0.627
27DAP/reference	0.94318	0.357
39DAP/reference	0.94627	0.122
41DAP/reference	1.00848	0.826
42DAP/reference	0.98773	0.816
43DAP/reference	0.90551	0.047
47DAP/reference	0.88858	0.054
52DAP/reference	0.84716	0.109
57DAP/reference	1.07127	0.47

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03192	1
26DAP/20DAP	1.76463	0.099
34DAP/26DAP	1.08053	1
51DAP/34DAP	1.04838	0.962
52DAP/51DAP	0.86953	1
53DAP/52DAP	1.18713	0.47
55DAP/53DAP	0.98928	0.864
57DAP/55DAP	1.1482	0.87
62DAP/57DAP	0.90755	0.28
68DAP/62DAP	0.98787	0.863
68DAP/14DAP	0.89732	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12591	0.347

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.78621	0.058
Mature Green Tomato/Ripe Tomato	1.30701	0.209
Immature Eggplant/Mature Eggplant	1.0441	0.528
Ripe Pepper/Ripe Tomato	2.11545	0.258
Mature Eggplant/Ripe Tomato	1.79095	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.92195
12-2/M82	N/A	N/A
12-4/M82	1.14465	1
1-3/M82	0.98506
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	1.1539
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.78083	0.447
6-2/M82	N/A	N/A
6-3/M82	0.98184
7-1/M82	N/A	N/A
7-2/M82	1.10233	0.29
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.4552	0.277
IL2-6/WTpooled	0.77755	0.473
IL7-5/WTpooled	1.37188	0.75
IL7-3/WTpooled	0.99901	1
IL12-4/WTpooled	0.9993	1
IL1-4/WTpooled	0.91702	0.834
WT/WTpooled	1.00678	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	1.0122	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9906
DC3000/delta hrp 6h	1.11691	0.857
DC3000/delta hrp 12h	1.06782	1
DC3000/delta hrp 24h	0.93165	0.642

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.9916	1
DC3000 delta B/DC3000 delta AB	1.16008	0.265

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.04272	1
Exp 36h	0.93167	0.82
Exp 60h	1.04477	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97703	1
Var 0h	1.27408	1
Var 12h I row2-row1	0.92404	0.344
Var 12h NI row2-row1	1.05174	0.649
Var 36h I row2-row1	1.10293	0.908
Var 36h NI row2-row1	1.20449	1
Var 60h I row2-row1	0.88531	0.374
Var 60h NI row2-row1	0.89357	0.977
Time course 0hI-0hNI	1.11529	0.574
Time course 12hI-12hNI	0.95453	0.719
Time course 36hI-36hNI	1.188	0.05
Time course 60hI-60hNI	1.02693	0.575

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)	1.17675	0.273
transgenic ySAMdc/azygous control (breaker)	0.88824	0.49
transgenic ySAMdc/azygous control (red)	1.06939	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04912	0.273

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89806	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.77424	1
Manapal/WT (break)	1.1107	1
Manapal/WT (red)	1.50046	0.164