Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.8.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.43959	0.073
27DAP/17DAP	0.51415	0.045
39DAP/27DAP	1.12407	0.899
41DAP/39DAP	1.14544	0.806
42DAP/41DAP	1.7266	0.619
43DAP/42DAP	0.95425	0.909
47DAP/43DAP	0.90943	0.64
52DAP/47DAP	1.13473	0.891
57DAP/52DAP	1.07803	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21518	0.685
17DAP/reference	1.75797	0.024
27DAP/reference	0.99107	0.847
39DAP/reference	0.93658	0.412
41DAP/reference	1.82769	0.023
42DAP/reference	1.42546	0.01
43DAP/reference	1.07903	0.838
47DAP/reference	1.88097	0.009
52DAP/reference	0.8038	0.244
57DAP/reference	1.1113	0.876

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.29766	0.026
27DAP/17DAP	0.94543	0.878
39DAP/27DAP	0.79778	0.146
41DAP/39DAP	1.11096	0.763
42DAP/41DAP	1.15949	0.257
43DAP/42DAP	0.87431	0.224
47DAP/43DAP	1.12572	0.257
52DAP/47DAP	1.94042	0.053
57DAP/52DAP	1.70822	0.079
57DAP/7DAP	0.22671	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87747	0.326
17DAP/reference	0.73317	0.031
27DAP/reference	1.22056	0.974
39DAP/reference	0.9128	0.23
41DAP/reference	0.97746	0.565
42DAP/reference	0.83001	0.169
43DAP/reference	1.10831	0.707
47DAP/reference	0.91412	0.504
52DAP/reference	1.04836	0.286
57DAP/reference	1.03862	0.571

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20736	0.23
17DAP/reference	1.17365	0.264
27DAP/reference	0.99715	0.576
39DAP/reference	1.00581	0.682
41DAP/reference	1.48534	0.025
42DAP/reference	1.10617	0.863
43DAP/reference	1.11013	1
47DAP/reference	1.21564	0.076
52DAP/reference	1.39507	0.074
57DAP/reference	1.28709	0.214

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18192	0.19
17DAP/reference	N/A	N/A
27DAP/reference	N/A	N/A
39DAP/reference	1.32279
41DAP/reference	1.09305	0.984
42DAP/reference	1.16222	0.45
43DAP/reference	1.4931	0.375
47DAP/reference	1.2988	0.63
52DAP/reference	0.91821	0.623
57DAP/reference	0.95999	0.73

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.974	1
26DAP/20DAP	1.81634	0.147
34DAP/26DAP	0.64819	0.139
51DAP/34DAP	0.36176	0.049
52DAP/51DAP	1.32612	0.057
53DAP/52DAP	0.99098	0.929
55DAP/53DAP	0.83506	0.233
57DAP/55DAP	0.87579	0.427
62DAP/57DAP	0.86646	0.28
68DAP/62DAP	1.00275	0.834
68DAP/14DAP	0.63	0.078

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.27595	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.79296
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

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	N/A	N/A
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	0.88371	0.243
IL2-6/WTpooled	1.36832	0.419
IL7-5/WTpooled	1.02773	1
IL7-3/WTpooled	0.77761	0.418
IL12-4/WTpooled	0.83829	0.581
IL1-4/WTpooled	0.99656	1
WT/WTpooled	0.88251	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	0.744	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12109	0.914
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.15737	1
DC3000/delta hrp 24h	0.81671	0.252

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.25725	0.094
DC3000 delta B/DC3000 delta AB	1.19121	0.298

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04311	1
Var 0h	0.5558	1
Var 12h I row2-row1	1.14726	0.613
Var 12h NI row2-row1	1.03175	1
Var 36h I row2-row1	0.83785	0.575
Var 36h NI row2-row1	0.95329	1
Var 60h I row2-row1	0.7918	0.439
Var 60h NI row2-row1	1.13928	0.904
Time course 0hI-0hNI	0.92555	0.332
Time course 12hI-12hNI	0.95924	0.515
Time course 36hI-36hNI	0.86396	0.096
Time course 60hI-60hNI	1.24381	0.302

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.3925	0.033

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.57917	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07918	1
Manapal/WT (break)	1.04781	1
Manapal/WT (red)	1.11802	1