Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.6.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09658	0.863
27DAP/17DAP	1.00128	1
39DAP/27DAP	0.97227	0.733
41DAP/39DAP	0.93745	0.771
42DAP/41DAP	0.97739	1
43DAP/42DAP	1.18636	0.875
47DAP/43DAP	1.05137	0.856
52DAP/47DAP	1.10541	0.969
57DAP/52DAP	0.89616	0.783

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94913	0.336
17DAP/reference	1.11372	0.112
27DAP/reference	0.96621	0.538
39DAP/reference	1.183	0.149
41DAP/reference	1.18779	0.032
42DAP/reference	1.14342	0.037
43DAP/reference	1.12126	0.078
47DAP/reference	1.00117	0.568
52DAP/reference	0.87536	0.105
57DAP/reference	0.83611	0.049

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15309	0.334
27DAP/17DAP	0.91047	0.614
39DAP/27DAP	1.26379	0.241
41DAP/39DAP	0.92214	0.68
42DAP/41DAP	1.05455	0.886
43DAP/42DAP	1.28732	0.112
47DAP/43DAP	1.003	0.985
52DAP/47DAP	1.07577	0.713
57DAP/52DAP	0.96244	0.695
57DAP/7DAP	1.31091	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94502	0.361
17DAP/reference	0.90309	0.124
27DAP/reference	0.99487	0.698
39DAP/reference	0.935	0.083
41DAP/reference	1.02927	1
42DAP/reference	0.89061	0.055
43DAP/reference	0.99249	0.608
47DAP/reference	1.08126	0.377
52DAP/reference	1.01097	0.802
57DAP/reference	0.94208	0.302

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15822	0.269
17DAP/reference	1.2625	0.028
27DAP/reference	1.18472	0.044
39DAP/reference	0.95588	0.306
41DAP/reference	1.05625	0.353
42DAP/reference	1.15069	0.274
43DAP/reference	1.38521	0.055
47DAP/reference	1.13677	0.056
52DAP/reference	0.89408	0.203
57DAP/reference	1.23004	0.068

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98715	0.653
17DAP/reference	1.1261	0.294
27DAP/reference	1.01096	1
39DAP/reference	0.94745	0.246
41DAP/reference	1.03388	1
42DAP/reference	0.98219	0.671
43DAP/reference	1.02806	1
47DAP/reference	1.37012	0.005
52DAP/reference	0.97731	0.732
57DAP/reference	0.90081	0.174

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00696	1
26DAP/20DAP	1.1509	0.449
34DAP/26DAP	0.98431	0.988
51DAP/34DAP	1.28284	0.044
52DAP/51DAP	0.87326	1
53DAP/52DAP	0.95701	0.848
55DAP/53DAP	0.9437	0.686
57DAP/55DAP	0.91208	0.748
62DAP/57DAP	N/A	N/A
68DAP/62DAP	1.32319	0.345
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.07678	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.50326	0.096
Mature Green Tomato/Ripe Tomato	0.56962	0.017
Immature Eggplant/Mature Eggplant	1.03568
Ripe Pepper/Ripe Tomato	1.60909	1
Mature Eggplant/Ripe Tomato	0.90837	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.14645	0.742
1-1-2/M82	1.11848	1
12-2/M82	1.27547	0.239
12-4/M82	1.03753	1
1-3/M82	1.08063	1
2-1-1/M82	0.93134	0.92
2-1/M82	1.02009	1
2-6/M82	0.97379	1
3-2/M82	1.00684
4-1-1/M82	0.89481	0.962
4-1/M82	N/A	N/A
4-3-2/M82	1.50515
4-3/M82	1.22624	0.268
5-3/M82	1.00928	1
6-2/M82	0.91106
6-3/M82	0.95091	0.982
7-1/M82	0.96754
7-2/M82	0.96283	0.881
9-3-2/M82	1.1355	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01561	1
IL2-6/WTpooled	1.28214	0.419
IL7-5/WTpooled	1.22885	0.792
IL7-3/WTpooled	0.99925	1
IL12-4/WTpooled	0.99494	1
IL1-4/WTpooled	1.0466	1
WT/WTpooled	1.0193	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	1.22759	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13287	0.921
DC3000/delta hrp 6h	1.11717	1
DC3000/delta hrp 12h	1.14667	1
DC3000/delta hrp 24h	1.00569	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90752	0.328
Exp 36h	0.96989	0.879
Exp 60h	0.95302	0.994

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01556	1
Var 0h	1.03669	1
Var 12h I row2-row1	0.94461	0.77
Var 12h NI row2-row1	0.79445	0.427
Var 36h I row2-row1	0.9086	0.805
Var 36h NI row2-row1	0.76586	0.61
Var 60h I row2-row1	1.30816	0.562
Var 60h NI row2-row1	1.19845	0.904
Time course 0hI-0hNI	1.00706	0.852
Time course 12hI-12hNI	0.97303	0.799
Time course 36hI-36hNI	0.88148	0.084
Time course 60hI-60hNI	0.722	0.008

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)	1.00562	0.748
transgenic ySAMdc/azygous control (breaker)	1.32834	0.248
transgenic ySAMdc/azygous control (red)	1.03562	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99741	0.858

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73298	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0233	1
Manapal/WT (break)	1.11599	1
Manapal/WT (red)	1.05941	1