Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.13.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.3837	0.014
27DAP/17DAP	1.42478	0.804
39DAP/27DAP	1.01318	0.749
41DAP/39DAP	1.52139	0.212
42DAP/41DAP	1.15013	0.767
43DAP/42DAP	0.81051	0.556
47DAP/43DAP	0.80609	0.395
52DAP/47DAP	2.55772	0.081
57DAP/52DAP	0.71627	0.622

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81496	0.054
17DAP/reference	0.81776	0.091
27DAP/reference	0.90894	0.223
39DAP/reference	0.82464	0.1
41DAP/reference	0.65516	0.013
42DAP/reference	0.81161	0.005
43DAP/reference	0.91693	0.222
47DAP/reference	0.80689	0.038
52DAP/reference	1.18612	0.32
57DAP/reference	1.45036	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92726	0.526
27DAP/17DAP	0.87376	0.339
39DAP/27DAP	1.21505	0.227
41DAP/39DAP	0.94998	0.893
42DAP/41DAP	0.88085	0.3
43DAP/42DAP	1.36697	0.052
47DAP/43DAP	1.54101	0.641
52DAP/47DAP	1.50532	0.123
57DAP/52DAP	1.62535	0.139
57DAP/7DAP	1.14281	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98693	0.495
17DAP/reference	0.97176	0.295
27DAP/reference	0.9184	0.03
39DAP/reference	1.03037	0.267
41DAP/reference	0.99004	0.512
42DAP/reference	0.97578	0.275
43DAP/reference	1.01475	0.788
47DAP/reference	1.02504	0.996
52DAP/reference	0.92336	0.097
57DAP/reference	0.87734	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91578	0.362
17DAP/reference	0.67935	0.008
27DAP/reference	0.77539	0.013
39DAP/reference	0.87179	0.095
41DAP/reference	0.93634	0.268
42DAP/reference	0.89021	0.05
43DAP/reference	0.77261	0.07
47DAP/reference	0.83865	0.014
52DAP/reference	0.80861	0.008
57DAP/reference	0.58807	0.01

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90976	0.127
17DAP/reference	0.88341	0.221
27DAP/reference	0.89409	0.051
39DAP/reference	0.90659	0.015
41DAP/reference	0.92362	0.037
42DAP/reference	1.13903	0.307
43DAP/reference	1.03703	0.993
47DAP/reference	0.919	0.199
52DAP/reference	0.99008	0.821
57DAP/reference	1.46551	0.032

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07999	1
26DAP/20DAP	0.77209	0.512
34DAP/26DAP	1.2688	0.542
51DAP/34DAP	0.99972	0.917
52DAP/51DAP	0.93479	1
53DAP/52DAP	0.98202	0.938
55DAP/53DAP	1.2403	0.275
57DAP/55DAP	1.06613	0.935
62DAP/57DAP	1.01758	1
68DAP/62DAP	1.26516	0.919
68DAP/14DAP	1.57796	0.223

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.38127	0.049

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.26242	0.018
Immature Eggplant/Mature Eggplant	3.23661	0.05
Ripe Pepper/Ripe Tomato	0.39559	0.224
Mature Eggplant/Ripe Tomato	0.64285	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.14454	0.742
1-1-2/M82	1.00724
12-2/M82	1.58688	0.281
12-4/M82	0.64036	0.619
1-3/M82	1.39193
2-1-1/M82	1.03686	1
2-1/M82	1.40598
2-6/M82	1.77299	0.695
3-2/M82	N/A	N/A
4-1-1/M82	1.23491
4-1/M82	1.47963
4-3-2/M82	N/A	N/A
4-3/M82	1.30945	1
5-3/M82	0.77152	0.447
6-2/M82	4.32878	0.235
6-3/M82	0.90345	1
7-1/M82	N/A	N/A
7-2/M82	1.85729	0.324
9-3-2/M82	1.43969

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.51387	0.395
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.86358	0.418
IL12-4/WTpooled	0.91701	0.71
IL1-4/WTpooled	0.90648
WT/WTpooled	1.0092	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	1.10749	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04878	0.875
DC3000/delta hrp 6h	1.24854	1
DC3000/delta hrp 12h	1.1206	1
DC3000/delta hrp 24h	1.49642	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.64123	0.052
DC3000 delta B/DC3000 delta AB	1.77894	0.105

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94499	1
Exp 36h	1.20324	1
Exp 60h	1.32127	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96644	1
Var 0h	1.1715	0.594
Var 12h I row2-row1	1.61522	0.348
Var 12h NI row2-row1	0.78954	0.546
Var 36h I row2-row1	0.91674	0.805
Var 36h NI row2-row1	0.93652	0.706
Var 60h I row2-row1	1.05625	1
Var 60h NI row2-row1	1.49916	0.904
Time course 0hI-0hNI	0.85179	0.123
Time course 12hI-12hNI	1.20651	0.034
Time course 36hI-36hNI	1.08749	0.19
Time course 60hI-60hNI	1.13674	0.096

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)	1.12991	0.325
transgenic ySAMdc/azygous control (breaker)	0.54743	0.134
transgenic ySAMdc/azygous control (red)	1.1825	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.8625	0.07

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04348	0.277

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)	0.68316	1
Manapal/WT (red)	1.65426	1