Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.15.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84928	0.445
27DAP/17DAP	1.24175	0.799
39DAP/27DAP	0.82998	0.482
41DAP/39DAP	1.03893	0.866
42DAP/41DAP	1.23412	0.709
43DAP/42DAP	1.10754	0.91
47DAP/43DAP	1.38814	0.215
52DAP/47DAP	0.81699	0.526
57DAP/52DAP	1.22358	0.794

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81251	0.064
17DAP/reference	0.98965	0.819
27DAP/reference	1.00554	0.867
39DAP/reference	0.99819	0.975
41DAP/reference	0.92871	0.267
42DAP/reference	0.87212	0.017
43DAP/reference	0.94857	0.234
47DAP/reference	0.96222	0.366
52DAP/reference	0.95191	0.393
57DAP/reference	1.21513	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0353	0.947
27DAP/17DAP	0.93552	0.782
39DAP/27DAP	1.11339	0.646
41DAP/39DAP	1.17016	0.565
42DAP/41DAP	1.07072	0.675
43DAP/42DAP	1.05295	0.664
47DAP/43DAP	1.06093	0.963
52DAP/47DAP	0.88175	0.603
57DAP/52DAP	0.91685	0.572
57DAP/7DAP	1.62305	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89271	0.1
17DAP/reference	0.89857	0.044
27DAP/reference	1.03061	0.664
39DAP/reference	1.05821	0.46
41DAP/reference	0.9926	0.646
42DAP/reference	1.02152	1
43DAP/reference	1.01569	1
47DAP/reference	1.00955	1
52DAP/reference	0.97238	0.477
57DAP/reference	0.92823	0.215

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9964	0.77
17DAP/reference	0.70821	0.008
27DAP/reference	0.76746	0.054
39DAP/reference	0.80262	0.05
41DAP/reference	0.93072	0.188
42DAP/reference	0.98127	0.534
43DAP/reference	0.82838	0.128
47DAP/reference	0.96821	0.379
52DAP/reference	0.91168	0.02
57DAP/reference	0.78499	0.03

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00166	0.804
17DAP/reference	0.97794	0.624
27DAP/reference	1.1127	0.392
39DAP/reference	0.98567	0.643
41DAP/reference	0.95751	0.512
42DAP/reference	1.00903	1
43DAP/reference	0.86156	0.098
47DAP/reference	0.93309	0.207
52DAP/reference	0.95345	0.538
57DAP/reference	1.09477	0.673

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09404	0.85
26DAP/20DAP	0.99206	1
34DAP/26DAP	1.00958	1
51DAP/34DAP	0.72531	0.109
52DAP/51DAP	1.03597	1
53DAP/52DAP	1.06979	0.723
55DAP/53DAP	1.0836	0.737
57DAP/55DAP	0.93037	0.709
62DAP/57DAP	1.15633	1
68DAP/62DAP	1.03983	0.914
68DAP/14DAP	1.31574	0.656

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.18086	0.821

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.5808	0.203
Mature Green Tomato/Ripe Tomato	1.05909
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.28077
Mature Eggplant/Ripe Tomato	0.67835

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.1228	1
1-1-2/M82	0.95397	1
12-2/M82	1.00357	1
12-4/M82	0.9371	1
1-3/M82	0.87755	0.368
2-1-1/M82	0.85565	0.784
2-1/M82	1.08069	1
2-6/M82	1.14327	1
3-2/M82	N/A	N/A
4-1-1/M82	1.21033
4-1/M82	N/A	N/A
4-3-2/M82	1.07036	1
4-3/M82	0.74888
5-3/M82	0.88943	0.642
6-2/M82	0.87885
6-3/M82	0.94704	1
7-1/M82	0.71101	0.476
7-2/M82	1.13571
9-3-2/M82	1.14316	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.89556	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.2063
IL12-4/WTpooled	1.3749	0.497
IL1-4/WTpooled	0.84717	0.834
WT/WTpooled	0.9846	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	1.11172	0.699

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	N/A	N/A
DC3000/delta hrp 12h	1.02561	1
DC3000/delta hrp 24h	1.00874	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.44243

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	1.04784	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04312	1
Var 0h	0.79957	0.933
Var 12h I row2-row1	1.93692	0.506
Var 12h NI row2-row1	0.66543	1
Var 36h I row2-row1	1.32172	0.908
Var 36h NI row2-row1	0.90112	0.375
Var 60h I row2-row1	1.06601
Var 60h NI row2-row1	1.22831	0.904
Time course 0hI-0hNI	0.84765	0.999
Time course 12hI-12hNI	1.01134	1
Time course 36hI-36hNI	1.11606	0.355
Time course 60hI-60hNI	1.19522	0.359

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)	0.98504	0.662
transgenic ySAMdc/azygous control (breaker)	0.9436	0.49
transgenic ySAMdc/azygous control (red)	1.10698	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97279	0.191

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.85537	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.76901	1
Manapal/WT (break)	1.06926	1
Manapal/WT (red)	0.98412	0.863