Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.8.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14516	0.863
27DAP/17DAP	1.29382	0.791
39DAP/27DAP	0.80711	0.402
41DAP/39DAP	1.33628	0.129
42DAP/41DAP	2.66679	0.059
43DAP/42DAP	1.15404	0.867
47DAP/43DAP	0.90464	0.671
52DAP/47DAP	0.92517	0.736
57DAP/52DAP	0.9699	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92928	0.048
17DAP/reference	0.98365	0.664
27DAP/reference	0.98736	0.654
39DAP/reference	1.08208	0.445
41DAP/reference	0.89088	0.154
42DAP/reference	0.86939	0.01
43DAP/reference	0.97721	0.675
47DAP/reference	0.92547	0.046
52DAP/reference	0.79309	0.069
57DAP/reference	0.88104	0.035

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89743	0.238
27DAP/17DAP	1.00265	1
39DAP/27DAP	1.1331	0.259
41DAP/39DAP	0.97844	0.986
42DAP/41DAP	1.02926	0.893
43DAP/42DAP	1.09331	0.079
47DAP/43DAP	1.03029	0.765
52DAP/47DAP	1.05329	0.785
57DAP/52DAP	1.05623	0.722
57DAP/7DAP	1.1802	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80137
17DAP/reference	0.93692	0.044
27DAP/reference	0.85661	0.011
39DAP/reference	0.99553
41DAP/reference	0.86185	0.038
42DAP/reference	N/A	N/A
43DAP/reference	0.82499	0.056
47DAP/reference	0.86055	0.057
52DAP/reference	0.89809	0.022
57DAP/reference	0.82213	0.016

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00204	0.993
17DAP/reference	0.93714	0.201
27DAP/reference	1.00804	1
39DAP/reference	0.86305	0.085
41DAP/reference	0.83619	0.054
42DAP/reference	0.85577	0.014
43DAP/reference	1.00894	1
47DAP/reference	0.91305	0.015
52DAP/reference	0.91585	0.093
57DAP/reference	0.96762	0.488

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93491	0.035
17DAP/reference	0.96154	0.275
27DAP/reference	0.98724	0.516
39DAP/reference	0.94241	0.058
41DAP/reference	0.95049	0.237
42DAP/reference	0.80899	0.041
43DAP/reference	0.88856	0.206
47DAP/reference	0.91026	0.161
52DAP/reference	0.8686	0.186
57DAP/reference	0.72974	0.021

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95131	1
26DAP/20DAP	0.89224	0.512
34DAP/26DAP	1.14153	0.819
51DAP/34DAP	0.94727	0.649
52DAP/51DAP	1.0478	0.565
53DAP/52DAP	0.99869	1
55DAP/53DAP	1.07	0.468
57DAP/55DAP	1.08322	0.826
62DAP/57DAP	1.10311	0.8
68DAP/62DAP	0.89511	0.609
68DAP/14DAP	0.89007	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.17538	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.62753
Mature Green Tomato/Ripe Tomato	0.46071	0.025
Immature Eggplant/Mature Eggplant	0.62892
Ripe Pepper/Ripe Tomato	0.3451	0.224
Mature Eggplant/Ripe Tomato	0.64035	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10017	0.877
1-1-2/M82	1.10938	1
12-2/M82	0.96736	0.955
12-4/M82	1.23808	1
1-3/M82	0.95382	0.441
2-1-1/M82	1.30109	0.422
2-1/M82	0.49412
2-6/M82	0.96606	1
3-2/M82	1.05913	0.84
4-1-1/M82	1.00213	1
4-1/M82	1.14783	1
4-3-2/M82	1.24731	0.508
4-3/M82	0.96327	1
5-3/M82	0.99672	1
6-2/M82	1.09975
6-3/M82	1.00235	1
7-1/M82	1.03214	1
7-2/M82	0.97577	0.486
9-3-2/M82	1.57759	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.26987
IL2-6/WTpooled	1.16311	0.584
IL7-5/WTpooled	0.86814	1
IL7-3/WTpooled	1.0427	1
IL12-4/WTpooled	0.91381	0.71
IL1-4/WTpooled	1.16387	1
WT/WTpooled	0.93144	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	1.35991	0.193

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99359	1
DC3000/delta hrp 6h	0.90081	0.95
DC3000/delta hrp 12h	0.94978	1
DC3000/delta hrp 24h	1.09864	0.271

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.06612	0.384
DC3000 delta B/DC3000 delta AB	1.0581	0.51

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99781	1
Exp 36h	1.11233	1
Exp 60h	0.99586	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01621	1
Var 0h	0.48059	1
Var 12h I row2-row1	1.18245	0.506
Var 12h NI row2-row1	0.96535	0.906
Var 36h I row2-row1	1.12405	1
Var 36h NI row2-row1	0.93123	0.61
Var 60h I row2-row1	1.18719	1
Var 60h NI row2-row1	1.24118	0.904
Time course 0hI-0hNI	1.14948	0.574
Time course 12hI-12hNI	1.04683	0.777
Time course 36hI-36hNI	1.04678	0.513
Time course 60hI-60hNI	1.41867	0.009

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)	1.01931	0.863
transgenic ySAMdc/azygous control (breaker)	0.81468	0.251
transgenic ySAMdc/azygous control (red)	0.8646	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97628	0.168

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.6966	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.60748	0.172
Manapal/WT (break)	1.23006	1
Manapal/WT (red)	1.00825	1