Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.20.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96346	0.743
27DAP/17DAP	1.02497	0.926
39DAP/27DAP	0.747	0.399
41DAP/39DAP	1.31514	0.103
42DAP/41DAP	0.97273	1
43DAP/42DAP	1.0482	1
47DAP/43DAP	0.90535	0.667
52DAP/47DAP	1.03324	0.96
57DAP/52DAP	1.00555	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87724	0.078
17DAP/reference	0.95895	0.393
27DAP/reference	1.07485	0.509
39DAP/reference	1.06616	0.203
41DAP/reference	0.98321	0.814
42DAP/reference	0.99188	0.517
43DAP/reference	0.96678	0.555
47DAP/reference	1.14395	0.04
52DAP/reference	1.12243	0.102
57DAP/reference	1.13976	0.105

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96203	0.644
27DAP/17DAP	1.00303	1
39DAP/27DAP	0.98647	0.953
41DAP/39DAP	0.96581	0.968
42DAP/41DAP	1.01867	0.925
43DAP/42DAP	1.09455	0.134
47DAP/43DAP	0.94018	0.247
52DAP/47DAP	0.9538	0.837
57DAP/52DAP	0.94786	0.596
57DAP/7DAP	1.3796	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87604	0.157
17DAP/reference	0.79393	0.011
27DAP/reference	0.76218	0.011
39DAP/reference	0.79363	0.025
41DAP/reference	0.80717	0.029
42DAP/reference	0.6929	0.011
43DAP/reference	0.75363	0.02
47DAP/reference	0.94574	0.504
52DAP/reference	0.86214	0.024
57DAP/reference	0.78091	0.029

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.856	0.176
17DAP/reference	0.91766	0.086
27DAP/reference	0.9334	0.352
39DAP/reference	0.96327	0.202
41DAP/reference	1.60425	0.831
42DAP/reference	1.06946	0.634
43DAP/reference	1.00868	0.863
47DAP/reference	1.09204	0.498
52DAP/reference	0.92843	0.22
57DAP/reference	0.87813	0.092

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86171	0.074
17DAP/reference	0.89982	0.322
27DAP/reference	0.82958	0.053
39DAP/reference	0.78215	0.031
41DAP/reference	0.85682	0.046
42DAP/reference	0.82072	0.134
43DAP/reference	0.90511	0.197
47DAP/reference	1.09377	0.424
52DAP/reference	0.84536	0.296
57DAP/reference	1.36762	0.014

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.59284	0.395
26DAP/20DAP	0.9596	1
34DAP/26DAP	1.09241	1
51DAP/34DAP	0.90932	0.587
52DAP/51DAP	1.19629	0.288
53DAP/52DAP	1.17322	0.797
55DAP/53DAP	1.252	0.504
57DAP/55DAP	0.95525	0.748
62DAP/57DAP	1.04516	0.833
68DAP/62DAP	1.4113	0.214
68DAP/14DAP	1.75096	0.065

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87969	0.322

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.64438	0.068
Mature Green Tomato/Ripe Tomato	1.54403	0.015
Immature Eggplant/Mature Eggplant	0.92966	0.545
Ripe Pepper/Ripe Tomato	0.49295	0.224
Mature Eggplant/Ripe Tomato	0.92945	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03954	0.877
1-1-2/M82	0.86846	0.958
12-2/M82	1.14154
12-4/M82	1.03033	1
1-3/M82	0.94053
2-1-1/M82	1.37961
2-1/M82	0.87429
2-6/M82	0.87475
3-2/M82	0.95976
4-1-1/M82	N/A	N/A
4-1/M82	0.83003	1
4-3-2/M82	0.87123	0.698
4-3/M82	0.86124
5-3/M82	0.99244	1
6-2/M82	N/A	N/A
6-3/M82	0.80607	1
7-1/M82	1.00611
7-2/M82	0.91182	0.796
9-3-2/M82	0.88432	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.28918	0.277
IL2-6/WTpooled	0.85745	0.473
IL7-5/WTpooled	1.34822	0.75
IL7-3/WTpooled	1.24323	1
IL12-4/WTpooled	0.99556	1
IL1-4/WTpooled	1.12958	1
WT/WTpooled	1.03001	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06948	0.921
DC3000/delta hrp 6h	1.10188	1
DC3000/delta hrp 12h	0.97876	1
DC3000/delta hrp 24h	1.43508	0.422

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.44954
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	0.98883	1
Exp 36h	0.92559	0.589
Exp 60h	1.01999	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95277	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.04583	1
Var 12h NI row2-row1	0.99061	1
Var 36h I row2-row1	0.91133	1
Var 36h NI row2-row1	0.95448	0.706
Var 60h I row2-row1	1.01835	1
Var 60h NI row2-row1	0.91716	0.572
Time course 0hI-0hNI	0.98137	0.935
Time course 12hI-12hNI	1.05567	0.639
Time course 36hI-36hNI	1.19535	0.07
Time course 60hI-60hNI	1.83537	0.008

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)	0.97381	0.286
transgenic ySAMdc/azygous control (breaker)	0.90259	0.251
transgenic ySAMdc/azygous control (red)	0.92543	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01058	0.619

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10868	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.59675	0.172
Manapal/WT (break)	0.82402	1
Manapal/WT (red)	0.85497	0.274