Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.12.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09635	0.798
27DAP/17DAP	0.79488	0.626
39DAP/27DAP	N/A	N/A
41DAP/39DAP	0.719	0.373
42DAP/41DAP	0.70034	0.774
43DAP/42DAP	1.7031	0.546
47DAP/43DAP	0.80386	0.484
52DAP/47DAP	1.08105	0.946
57DAP/52DAP	1.00347	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20555	0.9
17DAP/reference	N/A	N/A
27DAP/reference	N/A	N/A
39DAP/reference	1.1952
41DAP/reference	1.18548	0.714
42DAP/reference	1.66735	0.015
43DAP/reference	N/A	N/A
47DAP/reference	1.30985	0.404
52DAP/reference	0.70904
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89099	0.454
27DAP/17DAP	1.23793	0.514
39DAP/27DAP	1.69213	0.296
41DAP/39DAP	1.66681	0.807
42DAP/41DAP	1.04294	0.882
43DAP/42DAP	0.96394	0.751
47DAP/43DAP	1.4191	0.448
52DAP/47DAP	0.93045	0.726
57DAP/52DAP	1.38769	0.504
57DAP/7DAP	1.05806	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.03668	0.024
17DAP/reference	1.29344	0.244
27DAP/reference	1.27346	0.011
39DAP/reference	1.21743	0.042
41DAP/reference	1.30122	0.034
42DAP/reference	1.23169	0.1
43DAP/reference	1.18611	0.212
47DAP/reference	1.48235	0.029
52DAP/reference	1.40883	0.012
57DAP/reference	1.3554	0.013

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31932	0.289
17DAP/reference	1.49902	0.203
27DAP/reference	1.43152	0.23
39DAP/reference	1.31679	0.529
41DAP/reference	1.08806	0.766
42DAP/reference	1.73492	0.455
43DAP/reference	1.26938	0.453
47DAP/reference	1.0502
52DAP/reference	1.18411	0.471
57DAP/reference	0.99538	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.12314	0.015
17DAP/reference	1.49905	0.037
27DAP/reference	1.30977	0.022
39DAP/reference	1.3652	0.009
41DAP/reference	1.13009	0.069
42DAP/reference	1.09143	0.51
43DAP/reference	1.13419	0.096
47DAP/reference	0.85745	0.24
52DAP/reference	1.37636	0.186
57DAP/reference	1.76121	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05228	1
26DAP/20DAP	0.28723
34DAP/26DAP	1.3092	1
51DAP/34DAP	1.23508	0.854
52DAP/51DAP	1.6155
53DAP/52DAP	0.99694	1
55DAP/53DAP	0.75469	0.033
57DAP/55DAP	0.75298	0.423
62DAP/57DAP	1.30731	0.767
68DAP/62DAP	0.78966	0.641
68DAP/14DAP	1.74291

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	N/A	N/A

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
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	N/A	N/A
IL2-6/WTpooled	1.16538	0.456
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.89633
IL12-4/WTpooled	0.81751	0.484
IL1-4/WTpooled	1.22613	1
WT/WTpooled	1.04314	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	N/A	N/A
DC3000/delta hrp 6h	1.74947
DC3000/delta hrp 12h	1.34456
DC3000/delta hrp 24h	N/A	N/A

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.18329	0.476
DC3000 delta B/DC3000 delta AB	8.79158

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	0.97039	1
Var 0h	0.19201	1
Var 12h I row2-row1	1.02481	1
Var 12h NI row2-row1	1.25259	0.649
Var 36h I row2-row1	1.27997	0.742
Var 36h NI row2-row1	0.89933	0.743
Var 60h I row2-row1	0.74065	0.293
Var 60h NI row2-row1	0.89611	0.516
Time course 0hI-0hNI	0.8838	0.381
Time course 12hI-12hNI	1.11759	0.65
Time course 36hI-36hNI	1.50149	0.008
Time course 60hI-60hNI	1.69598	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)	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	N/A	N/A

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