Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.1.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09973	0.838
27DAP/17DAP	1.01925	0.898
39DAP/27DAP	1.6964	0.106
41DAP/39DAP	1.18476	0.516
42DAP/41DAP	1.18815	0.899
43DAP/42DAP	0.82817	0.639
47DAP/43DAP	0.89199	0.663
52DAP/47DAP	0.84892	0.618
57DAP/52DAP	1.1255	0.946

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08499	0.252
17DAP/reference	0.80648	0.016
27DAP/reference	0.88086	0.194
39DAP/reference	0.84809	0.018
41DAP/reference	0.77258	0.014
42DAP/reference	1.45933	0.001
43DAP/reference	0.82366	0.018
47DAP/reference	0.99943	0.636
52DAP/reference	1.05569	0.8
57DAP/reference	1.14905	0.082

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98909	0.826
27DAP/17DAP	1.02295	0.945
39DAP/27DAP	N/A	N/A
41DAP/39DAP	1.04842	0.921
42DAP/41DAP	0.97558	0.803
43DAP/42DAP	1.07432	0.122
47DAP/43DAP	1.01234	0.948
52DAP/47DAP	1.02287	0.915
57DAP/52DAP	0.94745	0.546
57DAP/7DAP	0.88008	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88993	0.122
17DAP/reference	0.97977	0.518
27DAP/reference	1.10804	0.16
39DAP/reference	0.84466	0.064
41DAP/reference	0.907	0.184
42DAP/reference	1.11093	0.233
43DAP/reference	0.86958	0.11
47DAP/reference	1.06331	0.854
52DAP/reference	0.84689	0.077
57DAP/reference	0.8649	0.03

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14133	0.732
17DAP/reference	1.20911	0.147
27DAP/reference	1.55436	0.022
39DAP/reference	1.68847	0.014
41DAP/reference	1.88288	0.006
42DAP/reference	1.40988	0.012
43DAP/reference	1.13328	0.719
47DAP/reference	1.08968	0.4
52DAP/reference	1.16679	0.024
57DAP/reference	1.00091	0.68

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0736	0.602
17DAP/reference	1.09279	0.898
27DAP/reference	1.06024	0.805
39DAP/reference	0.91938	0.246
41DAP/reference	1.18406	0.57
42DAP/reference	1.32644	0.22
43DAP/reference	1.18939	0.524
47DAP/reference	1.00811	0.626
52DAP/reference	1.04243	1
57DAP/reference	1.91499	0.027

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06093	1
26DAP/20DAP	1.08933
34DAP/26DAP	1.03321	0.819
51DAP/34DAP	0.98196	0.863
52DAP/51DAP	0.94581	1
53DAP/52DAP	1.12176	0.58
55DAP/53DAP	1.02738	0.904
57DAP/55DAP	0.79071	0.437
62DAP/57DAP	0.57533
68DAP/62DAP	1.93218	0.767
68DAP/14DAP	1.81778

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.49491	0.025

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.23495	0.666
Mature Green Tomato/Ripe Tomato	0.86226	0.256
Immature Eggplant/Mature Eggplant	0.79428	0.067
Ripe Pepper/Ripe Tomato	0.07567	0.224
Mature Eggplant/Ripe Tomato	0.30563

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.14635
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	0.90817
7-2/M82	N/A	N/A
9-3-2/M82	0.7419

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87977	0.243
IL2-6/WTpooled	1.10977	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.7503	1
IL12-4/WTpooled	1.25674	0.646
IL1-4/WTpooled	0.89551	0.444
WT/WTpooled	0.97288	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	1.25343	0.116

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12411	0.846
DC3000/delta hrp 6h	0.8925	0.95
DC3000/delta hrp 12h	0.98299	1
DC3000/delta hrp 24h	2.2487	0.113

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.91421	0.724
DC3000 delta B/DC3000 delta AB	1.04834	0.524

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95094	1
Exp 36h	0.85105	0.321
Exp 60h	0.80976	0.266

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98646	1
Var 0h	1.04014	0.782
Var 12h I row2-row1	1.06874	0.506
Var 12h NI row2-row1	0.93189	0.82
Var 36h I row2-row1	1.08308	1
Var 36h NI row2-row1	0.95469	0.743
Var 60h I row2-row1	1.02222	1
Var 60h NI row2-row1	1.25016	0.904
Time course 0hI-0hNI	1.00956	1
Time course 12hI-12hNI	0.9913	0.991
Time course 36hI-36hNI	0.97455	0.484
Time course 60hI-60hNI	0.80745	0.011

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)	1.52228	0.321
transgenic ySAMdc/azygous control (breaker)	0.71581	0.15
transgenic ySAMdc/azygous control (red)	1.21766	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04742	0.096

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05699	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.53952	0.172
Manapal/WT (break)	1.28409	1
Manapal/WT (red)	N/A	N/A