Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.9.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0195	1
27DAP/17DAP	1.07469	0.881
39DAP/27DAP	0.95965	0.719
41DAP/39DAP	1.11407	0.806
42DAP/41DAP	1.05399	1
43DAP/42DAP	1.07351	1
47DAP/43DAP	1.24044	0.793
52DAP/47DAP	0.87451	0.634
57DAP/52DAP	1.01966	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9727	0.465
17DAP/reference	0.88565	0.043
27DAP/reference	0.91347	0.061
39DAP/reference	0.88206	0.056
41DAP/reference	0.91393	0.201
42DAP/reference	1.03638	0.252
43DAP/reference	1.05348	0.838
47DAP/reference	1.06027	0.365
52DAP/reference	0.9689	0.449
57DAP/reference	1.11098	0.056

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27277	0.258
27DAP/17DAP	0.93321	0.782
39DAP/27DAP	1.13316	0.465
41DAP/39DAP	1.10152	0.603
42DAP/41DAP	1.07405	0.773
43DAP/42DAP	1.03987	0.413
47DAP/43DAP	1.00349	0.998
52DAP/47DAP	1.16482	0.549
57DAP/52DAP	0.89365	0.56
57DAP/7DAP	1.45299

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85653	0.203
17DAP/reference	0.97717	0.447
27DAP/reference	1.02986	0.804
39DAP/reference	0.818	0.011
41DAP/reference	0.8046	0.05
42DAP/reference	1.03169	0.582
43DAP/reference	0.8945	0.115
47DAP/reference	1.06543	0.582
52DAP/reference	0.87227	0.026
57DAP/reference	1.04718	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05744	0.719
17DAP/reference	1.05287	0.839
27DAP/reference	1.06764	0.67
39DAP/reference	1.0283	1
41DAP/reference	1.14417	0.149
42DAP/reference	1.10402	0.14
43DAP/reference	1.25846	0.208
47DAP/reference	1.04527	0.4
52DAP/reference	1.00686	0.666
57DAP/reference	1.05188	0.737

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90596	0.127
17DAP/reference	0.98854	0.751
27DAP/reference	1.26278	0.024
39DAP/reference	1.25421	0.014
41DAP/reference	1.06505	0.486
42DAP/reference	1.13596	0.175
43DAP/reference	1.05168	0.734
47DAP/reference	1.09388	0.104
52DAP/reference	1.28376	0.153
57DAP/reference	1.14133	0.378

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00692	1
26DAP/20DAP	0.89698	1
34DAP/26DAP	0.81653	0.247
51DAP/34DAP	1.16991	0.303
52DAP/51DAP	1.09042	0.606
53DAP/52DAP	0.97709	0.909
55DAP/53DAP	1.25284	0.415
57DAP/55DAP	0.73579	0.151
62DAP/57DAP	1.00153	1
68DAP/62DAP	2.09409	0.009
68DAP/14DAP	1.38062	0.504

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.5155	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.65774	0.165
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.36	0.224
Mature Eggplant/Ripe Tomato	0.32184	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12681	0.877
1-1-2/M82	0.92505	1
12-2/M82	0.81532
12-4/M82	0.87847	1
1-3/M82	0.8738	0.501
2-1-1/M82	1.05215	0.338
2-1/M82	0.64656
2-6/M82	1.13841	1
3-2/M82	0.81242	1
4-1-1/M82	1.19774	0.968
4-1/M82	1.1367	1
4-3-2/M82	0.88682	1
4-3/M82	0.84512	1
5-3/M82	0.93325	1
6-2/M82	0.98869
6-3/M82	0.98314	1
7-1/M82	1.14557	0.598
7-2/M82	1.01153	1
9-3-2/M82	0.82938	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.08741	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.01605	1
IL12-4/WTpooled	0.97893	1
IL1-4/WTpooled	1.13058
WT/WTpooled	0.84247	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	0.94224	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09979	0.875
DC3000/delta hrp 6h	0.95267	0.95
DC3000/delta hrp 12h	1.09204	1
DC3000/delta hrp 24h	0.97559	0.875

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	1.30828	0.167

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00978	1
Exp 36h	0.92969	0.749
Exp 60h	1.2057	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00245	1
Var 0h	1.00492	1
Var 12h I row2-row1	1.28325	0.473
Var 12h NI row2-row1	0.7686	0.713
Var 36h I row2-row1	1.0262	1
Var 36h NI row2-row1	1.00046	1
Var 60h I row2-row1	1.06382	0.543
Var 60h NI row2-row1	0.82219	0.431
Time course 0hI-0hNI	1.02816	0.867
Time course 12hI-12hNI	0.96826	0.82
Time course 36hI-36hNI	1.09863	0.19
Time course 60hI-60hNI	1.12022	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)	1.1292	0.36
transgenic ySAMdc/azygous control (breaker)	0.9616	1
transgenic ySAMdc/azygous control (red)	1.07293	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97549	0.295

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96677	0.59

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.92507	1
Manapal/WT (break)	1.35439	0.381
Manapal/WT (red)	1.02633	1