Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.16.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03799	0.997
27DAP/17DAP	1.30301	0.825
39DAP/27DAP	1.43691	0.323
41DAP/39DAP	0.71962	0.147
42DAP/41DAP	1.53535	0.404
43DAP/42DAP	1.10765	1
47DAP/43DAP	1.05607	0.959
52DAP/47DAP	0.97013	0.903
57DAP/52DAP	1.04395	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93721	0.308
17DAP/reference	1.0752	0.047
27DAP/reference	1.05251	0.299
39DAP/reference	1.01258	0.603
41DAP/reference	0.9438	0.434
42DAP/reference	0.90419	0.015
43DAP/reference	1.02238	0.705
47DAP/reference	1.04917	0.215
52DAP/reference	0.8731	0.147
57DAP/reference	0.9792	0.526

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31068	0.077
27DAP/17DAP	0.9259	0.537
39DAP/27DAP	0.99337	0.953
41DAP/39DAP	1.1168	1
42DAP/41DAP	1.1638	0.55
43DAP/42DAP	0.74602	0.022
47DAP/43DAP	0.96906	0.857
52DAP/47DAP	0.99689	0.951
57DAP/52DAP	1.0434	0.813
57DAP/7DAP	0.952	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27815	0.066
17DAP/reference	1.07397	0.244
27DAP/reference	1.01899	0.8
39DAP/reference	1.16613	0.081
41DAP/reference	1.2725	0.033
42DAP/reference	1.04593	0.686
43DAP/reference	1.01185	1
47DAP/reference	1.07603	0.493
52DAP/reference	1.18504	0.098
57DAP/reference	1.42376	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95167	0.426
17DAP/reference	0.95002	0.23
27DAP/reference	0.90016	0.282
39DAP/reference	0.8968	0.097
41DAP/reference	0.91998	0.16
42DAP/reference	0.94582	0.135
43DAP/reference	0.90577	0.132
47DAP/reference	0.94262	0.129
52DAP/reference	0.93021	0.066
57DAP/reference	0.94394	0.18

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05594	0.676
17DAP/reference	0.97596	0.658
27DAP/reference	1.00563	1
39DAP/reference	1.05807	0.285
41DAP/reference	0.92396	0.237
42DAP/reference	1.09752	0.51
43DAP/reference	1.06122	0.755
47DAP/reference	1.13678	0.066
52DAP/reference	1.19019	0.186
57DAP/reference	1.07407	0.856

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.85176	0.981
26DAP/20DAP	1.11956	0.629
34DAP/26DAP	0.93123	0.712
51DAP/34DAP	1.07773	0.677
52DAP/51DAP	0.93034	1
53DAP/52DAP	1.45543	0.028
55DAP/53DAP	0.90782	0.149
57DAP/55DAP	1.0779	0.87
62DAP/57DAP	1.00395	1
68DAP/62DAP	1.10106	0.971
68DAP/14DAP	1.35914	0.087

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.76677	0.046

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.62652	0.155
Mature Green Tomato/Ripe Tomato	1.11171	0.267
Immature Eggplant/Mature Eggplant	1.86007	0.05
Ripe Pepper/Ripe Tomato	1.38175	0.258
Mature Eggplant/Ripe Tomato	1.35319	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98766	0.961
1-1-2/M82	1.18173	1
12-2/M82	0.81077	0.727
12-4/M82	1.14989	1
1-3/M82	1.807	0.26
2-1-1/M82	0.95195	1
2-1/M82	1.1364	1
2-6/M82	1.05529	0.594
3-2/M82	1.18029	0.463
4-1-1/M82	1.15556	1
4-1/M82	1.78808
4-3-2/M82	1.12395	1
4-3/M82	1.25517	1
5-3/M82	1.13745	1
6-2/M82	1.11762
6-3/M82	0.91757	1
7-1/M82	1.13398	0.992
7-2/M82	0.98335	1
9-3-2/M82	1.10106	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.78138
IL2-6/WTpooled	1.16389	0.788
IL7-5/WTpooled	0.72966
IL7-3/WTpooled	1.18696	0.362
IL12-4/WTpooled	1.31292	0.553
IL1-4/WTpooled	0.84835	0.834
WT/WTpooled	1.05392	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	0.97007	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96663	1
DC3000/delta hrp 6h	0.98872	0.95
DC3000/delta hrp 12h	1.11627	1
DC3000/delta hrp 24h	0.94245	0.607

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.05886	0.355
DC3000 delta B/DC3000 delta AB	1.10389	0.377

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.12398	1
Exp 36h	1.10843	1
Exp 60h	1.07281	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02604	1
Var 0h	1.03825	1
Var 12h I row2-row1	0.99438	1
Var 12h NI row2-row1	1.09157	0.649
Var 36h I row2-row1	1.16923	0.601
Var 36h NI row2-row1	1.48534	1
Var 60h I row2-row1	0.81619	0.293
Var 60h NI row2-row1	0.95983	1
Time course 0hI-0hNI	0.96703	0.845
Time course 12hI-12hNI	1.02817	0.836
Time course 36hI-36hNI	1.08907	0.063
Time course 60hI-60hNI	1.087	0.254

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)	0.97853	0.722
transgenic ySAMdc/azygous control (breaker)	0.76899	0.15
transgenic ySAMdc/azygous control (red)	0.97253	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.1766	0.148

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.82356	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.1824	0.096
Manapal/WT (break)	1.1745	0.183
Manapal/WT (red)	1.38148	0.164