Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.17.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77636	0.272
27DAP/17DAP	1.30861	0.784
39DAP/27DAP	0.8448	0.512
41DAP/39DAP	1.43994	0.657
42DAP/41DAP	0.97688	1
43DAP/42DAP	1.05552	0.937
47DAP/43DAP	0.95725	0.716
52DAP/47DAP	2.01584	0.485
57DAP/52DAP	0.82957	0.857

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99261	0.601
17DAP/reference	0.68271	0.007
27DAP/reference	1.09745	0.806
39DAP/reference	0.73204	0.01
41DAP/reference	0.69648	0.009
42DAP/reference	1.17184	0.398
43DAP/reference	0.93147	0.48
47DAP/reference	1.37039	0.075
52DAP/reference	1.3907	0.128
57DAP/reference	1.71166	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.37968	0.762
27DAP/17DAP	0.63495	0.172
39DAP/27DAP	0.98783	0.812
41DAP/39DAP	1.13385	0.895
42DAP/41DAP	1.11268	0.947
43DAP/42DAP	1.10569	0.746
47DAP/43DAP	0.83343	0.239
52DAP/47DAP	1.49661	0.21
57DAP/52DAP	1.85334	0.044
57DAP/7DAP	3.24419	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0235	1
17DAP/reference	1.00887	1
27DAP/reference	0.90123	0.185
39DAP/reference	0.85986	0.17
41DAP/reference	0.86862	0.139
42DAP/reference	0.78271	0.046
43DAP/reference	0.94329	0.351
47DAP/reference	1.00335	1
52DAP/reference	0.87732	0.278
57DAP/reference	1.06739	0.654

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75681	0.087
17DAP/reference	0.85365	0.129
27DAP/reference	0.94266	0.407
39DAP/reference	1.13648	0.247
41DAP/reference	1.06925	0.944
42DAP/reference	1.2185	0.032
43DAP/reference	0.85828	0.277
47DAP/reference	0.92717	0.261
52DAP/reference	1.03765	0.702
57DAP/reference	0.87749	0.208

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99099	0.607
17DAP/reference	0.95447	0.571
27DAP/reference	0.68439	0.049
39DAP/reference	0.85887	0.133
41DAP/reference	0.87709	0.148
42DAP/reference	1.12987	0.5
43DAP/reference	1.40851	0.07
47DAP/reference	0.91645	0.315
52DAP/reference	0.95804	0.623
57DAP/reference	1.60585	0.121

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06161	1
26DAP/20DAP	0.68258	0.512
34DAP/26DAP	0.84292	0.606
51DAP/34DAP	1.61839
52DAP/51DAP	0.82742	1
53DAP/52DAP	0.99317	0.882
55DAP/53DAP	1.27266	0.312
57DAP/55DAP	1.27773	0.87
62DAP/57DAP	1.36651	0.515
68DAP/62DAP	2.01473	0.014
68DAP/14DAP	1.29099

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.74866	0.399

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.29673	0.119
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	0.55541
IL2-6/WTpooled	0.74272	0.473
IL7-5/WTpooled	0.4845	0.167
IL7-3/WTpooled	0.83381	1
IL12-4/WTpooled	0.95765	1
IL1-4/WTpooled	0.67051	0.422
WT/WTpooled	1.10413	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	1.0203	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00583	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.98968	1
DC3000/delta hrp 24h	0.7775

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.4835	0.026
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	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	1.09671	1
Var 0h	1.05892	1
Var 12h I row2-row1	1.08509	0.654
Var 12h NI row2-row1	0.84141	1
Var 36h I row2-row1	0.92416	1
Var 36h NI row2-row1	0.75295	0.706
Var 60h I row2-row1	0.99824	1
Var 60h NI row2-row1	0.81794	0.351
Time course 0hI-0hNI	1.07585	0.719
Time course 12hI-12hNI	1.04874	0.639
Time course 36hI-36hNI	1.1586	0.044
Time course 60hI-60hNI	0.85655	0.047

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.14261	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	N/A	N/A