Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.6.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25179	0.162
27DAP/17DAP	0.96472	0.964
39DAP/27DAP	1.09835	0.796
41DAP/39DAP	1.07415	1
42DAP/41DAP	1.63987	0.169
43DAP/42DAP	1.02092	0.937
47DAP/43DAP	0.95994	0.84
52DAP/47DAP	0.86244	0.622
57DAP/52DAP	1.56399	0.524

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93326	0.224
17DAP/reference	1.0604	0.282
27DAP/reference	1.01584	0.88
39DAP/reference	0.92756	0.11
41DAP/reference	1.01663	0.855
42DAP/reference	0.9041	0.007
43DAP/reference	0.98093	0.653
47DAP/reference	1.02625	0.646
52DAP/reference	1.00932	1
57DAP/reference	0.99584	0.736

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92812	0.542
27DAP/17DAP	0.96576	0.887
39DAP/27DAP	1.06524	0.611
41DAP/39DAP	1.03503	1
42DAP/41DAP	1.02078	0.976
43DAP/42DAP	0.96687	0.684
47DAP/43DAP	1.18095	0.749
52DAP/47DAP	0.82021	0.255
57DAP/52DAP	0.90313	0.494
57DAP/7DAP	1.06079	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06106	0.91
17DAP/reference	0.92103	0.253
27DAP/reference	1.06715	0.974
39DAP/reference	0.95459	0.411
41DAP/reference	1.01844	0.848
42DAP/reference	0.88082	0.222
43DAP/reference	1.06322	0.408
47DAP/reference	0.9598	0.504
52DAP/reference	1.34286	0.014
57DAP/reference	1.16551	0.17

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94044	0.399
17DAP/reference	0.99693	0.786
27DAP/reference	0.97486	0.393
39DAP/reference	1.00356	0.702
41DAP/reference	0.94058	0.11
42DAP/reference	0.99256	0.655
43DAP/reference	0.99058	0.736
47DAP/reference	0.97653	0.311
52DAP/reference	1.06478	0.223
57DAP/reference	1.0267	0.755

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98807	0.699
17DAP/reference	0.95586	0.615
27DAP/reference	0.77045	0.028
39DAP/reference	0.83106	0.163
41DAP/reference	1.13487	0.605
42DAP/reference	1.22292	0.287
43DAP/reference	0.94228	0.305
47DAP/reference	0.94197	0.315
52DAP/reference	1.0031	0.838
57DAP/reference	0.83819	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02959	0.966
26DAP/20DAP	0.79054	0.512
34DAP/26DAP	0.74696	0.44
51DAP/34DAP	0.90933	0.587
52DAP/51DAP	1.16085	0.915
53DAP/52DAP	1.09097	0.783
55DAP/53DAP	1.0571	0.964
57DAP/55DAP	1.10564	1
62DAP/57DAP	0.84958
68DAP/62DAP	0.83347	0.056
68DAP/14DAP	0.90349	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.37907	0.131

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.04716	0.417
Mature Green Tomato/Ripe Tomato	0.86704	0.317
Immature Eggplant/Mature Eggplant	1.23176	0.13
Ripe Pepper/Ripe Tomato	3.06336	1
Mature Eggplant/Ripe Tomato	1.61781	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.13515	0.877
1-1-2/M82	1.01066	1
12-2/M82	0.85017	0.464
12-4/M82	1.06233	1
1-3/M82	1.40718	0.248
2-1-1/M82	1.16813	0.689
2-1/M82	1.1008	1
2-6/M82	1.08139	0.594
3-2/M82	1.19597
4-1-1/M82	0.9043
4-1/M82	1.20083	0.853
4-3-2/M82	0.83392	1
4-3/M82	1.21681	1
5-3/M82	1.05866	1
6-2/M82	0.84347	0.481
6-3/M82	1.08587	1
7-1/M82	1.06125	0.598
7-2/M82	N/A	N/A
9-3-2/M82	1.13375	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.03203	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.14829	1
IL12-4/WTpooled	0.85632	0.581
IL1-4/WTpooled	1.063	1
WT/WTpooled	0.91779	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	1.05287	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96942	1
DC3000/delta hrp 6h	0.87389	0.95
DC3000/delta hrp 12h	0.9497	1
DC3000/delta hrp 24h	0.986	0.966

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.83397	0.242
Exp 36h	1.11322	0.371
Exp 60h	0.94327	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01326	1
Var 0h	1.03647	0.936
Var 12h I row2-row1	1.03183	0.692
Var 12h NI row2-row1	0.8356	1
Var 36h I row2-row1	1.01395	1
Var 36h NI row2-row1	0.91927	0.706
Var 60h I row2-row1	1.10775	0.523
Var 60h NI row2-row1	0.95852	1
Time course 0hI-0hNI	0.86956	0.111
Time course 12hI-12hNI	0.98288	0.893
Time course 36hI-36hNI	0.90457	0.074
Time course 60hI-60hNI	0.89251	0.319

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)	1.10541	0.23
transgenic ySAMdc/azygous control (breaker)	1.55125	0.162
transgenic ySAMdc/azygous control (red)	1.09433	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97231	0.172

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.04255	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.13671	1
Manapal/WT (break)	0.84777	0.333
Manapal/WT (red)	1.37098	0.133