Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.10.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98355	0.728
27DAP/17DAP	1.52539	0.618
39DAP/27DAP	1.31685	0.768
41DAP/39DAP	0.8539	0.563
42DAP/41DAP	1.43966	0.772
43DAP/42DAP	0.75067	0.409
47DAP/43DAP	0.94942	0.794
52DAP/47DAP	1.00125	0.89
57DAP/52DAP	1.55465	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78303	0.06
17DAP/reference	0.88024	0.12
27DAP/reference	1.03125	0.623
39DAP/reference	1.05125	0.534
41DAP/reference	1.07381	0.48
42DAP/reference	0.8741	0.013
43DAP/reference	0.99349	0.82
47DAP/reference	0.87494	0.027
52DAP/reference	1.06553	0.991
57DAP/reference	1.06657	0.682

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02677	0.762
27DAP/17DAP	1.01593	1
39DAP/27DAP	0.99495	1
41DAP/39DAP	0.97315	0.986
42DAP/41DAP	1.10957	1
43DAP/42DAP	0.69466	0.046
47DAP/43DAP	0.96067	0.843
52DAP/47DAP	1.13722	0.851
57DAP/52DAP	0.96534	0.753
57DAP/7DAP	1.22788	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.7891	0.066
17DAP/reference	0.89063	0.124
27DAP/reference	1.03129	0.974
39DAP/reference	0.94391	0.411
41DAP/reference	0.76064	0.033
42DAP/reference	0.77344	0.063
43DAP/reference	1.23232	0.066
47DAP/reference	0.91968	0.383
52DAP/reference	1.00804	0.74
57DAP/reference	1.07299	0.698

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93122	0.503
17DAP/reference	0.75027	0.052
27DAP/reference	0.87838	0.203
39DAP/reference	0.88568	0.202
41DAP/reference	0.8465	0.164
42DAP/reference	0.91249	0.321
43DAP/reference	1.13615	0.509
47DAP/reference	0.95974	0.4
52DAP/reference	0.75503	0.078
57DAP/reference	0.87216	0.107

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84002	0.147
17DAP/reference	0.91009	0.109
27DAP/reference	1.02793	0.903
39DAP/reference	1.00844	0.819
41DAP/reference	1.05374	0.796
42DAP/reference	0.95096	0.445
43DAP/reference	0.69418	0.032
47DAP/reference	0.88579	0.174
52DAP/reference	1.32211	0.601
57DAP/reference	8.94259	0.394

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95679	1
26DAP/20DAP	1.03753	1
34DAP/26DAP	1.34052	0.542
51DAP/34DAP	0.6979	0.069
52DAP/51DAP	0.83241	1
53DAP/52DAP	0.84807	0.489
55DAP/53DAP	1.1929	0.951
57DAP/55DAP	1.09044	0.986
62DAP/57DAP	1.19699	0.217
68DAP/62DAP	1.3429	0.754
68DAP/14DAP	0.91761	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.61812	0.031

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.36591
Mature Green Tomato/Ripe Tomato	6.70242	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.8966
12-2/M82	N/A	N/A
12-4/M82	0.83163	0.619
1-3/M82	N/A	N/A
2-1-1/M82	1.04165	1
2-1/M82	N/A	N/A
2-6/M82	0.7022	1
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	0.53178
5-3/M82	1.18658	1
6-2/M82	N/A	N/A
6-3/M82	0.95678	1
7-1/M82	N/A	N/A
7-2/M82	0.76128
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.11741
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	0.73695

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	1.07875	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93587	1
DC3000/delta hrp 6h	0.96261	0.95
DC3000/delta hrp 12h	0.85268	1
DC3000/delta hrp 24h	0.99758	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	2.10305

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.87694	1
Var 0h	0.7472	1
Var 12h I row2-row1	1.13801	0.379
Var 12h NI row2-row1	0.99401	1
Var 36h I row2-row1	0.99051	1
Var 36h NI row2-row1	1.0309	1
Var 60h I row2-row1	0.77658	0.285
Var 60h NI row2-row1	0.80904	0.904
Time course 0hI-0hNI	1.0285	0.852
Time course 12hI-12hNI	1.00676	1
Time course 36hI-36hNI	0.79501	0.097
Time course 60hI-60hNI	1.00145	1

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)	1.25499	1
transgenic ySAMdc/azygous control (breaker)	2.76655	0.178
transgenic ySAMdc/azygous control (red)	1.82801	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99733	0.832

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03784	1
Manapal/WT (break)	0.8968	1
Manapal/WT (red)	0.58729	0.181