Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.11.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85702	0.166
27DAP/17DAP	1.21087	0.819
39DAP/27DAP	0.96239	0.608
41DAP/39DAP	1.10169	0.591
42DAP/41DAP	0.96264	1
43DAP/42DAP	0.99656	0.937
47DAP/43DAP	1.05182	0.943
52DAP/47DAP	0.92441	0.758
57DAP/52DAP	1.05242	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02737	1
17DAP/reference	1.08175	0.059
27DAP/reference	1.06844	0.322
39DAP/reference	1.06481	0.043
41DAP/reference	1.07797	0.073
42DAP/reference	0.94784	0.064
43DAP/reference	0.96219	0.5
47DAP/reference	0.92303	0.09
52DAP/reference	0.86492	0.099
57DAP/reference	0.93922	0.294

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89937	0.363
27DAP/17DAP	1.09761	0.664
39DAP/27DAP	1.04486	0.811
41DAP/39DAP	1.02098	0.914
42DAP/41DAP	1.00288	0.907
43DAP/42DAP	0.93422	0.089
47DAP/43DAP	0.99106	0.971
52DAP/47DAP	0.94642	0.6
57DAP/52DAP	1.02562	0.906
57DAP/7DAP	0.99673	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03165	1
17DAP/reference	0.97698	0.447
27DAP/reference	0.96307	0.248
39DAP/reference	0.69303	0.013
41DAP/reference	0.79267	0.046
42DAP/reference	0.65773	0.01
43DAP/reference	0.77147	0.022
47DAP/reference	0.93582	0.168
52DAP/reference	0.84205	0.126
57DAP/reference	0.88102	0.191

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08127	0.254
17DAP/reference	1.07347	0.459
27DAP/reference	0.90948	0.173
39DAP/reference	0.92333	0.25
41DAP/reference	0.85967	0.089
42DAP/reference	0.93413	0.212
43DAP/reference	1.00466	0.863
47DAP/reference	1.00209	1
52DAP/reference	0.95981	0.171
57DAP/reference	1.02662	0.771

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83063	0.087
17DAP/reference	0.90729	0.348
27DAP/reference	0.86504	0.073
39DAP/reference	0.87212	0.037
41DAP/reference	0.96021	0.512
42DAP/reference	0.82513	0.172
43DAP/reference	0.83933	0.037
47DAP/reference	0.94481	0.325
52DAP/reference	0.89794	0.368
57DAP/reference	0.76842	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01403	0.966
26DAP/20DAP	1.00372	1
34DAP/26DAP	0.98101	0.97
51DAP/34DAP	0.96494	0.816
52DAP/51DAP	0.98441	1
53DAP/52DAP	1.17148	0.343
55DAP/53DAP	1.01173	0.951
57DAP/55DAP	0.99762	0.953
62DAP/57DAP	1.03131	0.902
68DAP/62DAP	0.99163	0.885
68DAP/14DAP	0.70738	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.19612	0.212

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.37275	0.068
Mature Green Tomato/Ripe Tomato	0.93358	0.569
Immature Eggplant/Mature Eggplant	1.39414	0.05
Ripe Pepper/Ripe Tomato	0.60576	0.224
Mature Eggplant/Ripe Tomato	1.084	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07067	0.877
1-1-2/M82	1.16339	1
12-2/M82	1.00247	1
12-4/M82	0.9904	1
1-3/M82	0.99961	1
2-1-1/M82	1.17221	0.764
2-1/M82	1.11138	0.345
2-6/M82	1.13004	0.594
3-2/M82	1.05902	0.84
4-1-1/M82	0.98826	1
4-1/M82	0.95084	0.665
4-3-2/M82	1.21754	0.508
4-3/M82	1.0802	1
5-3/M82	1.01295	1
6-2/M82	1.10161	1
6-3/M82	N/A	N/A
7-1/M82	0.78978
7-2/M82	1.10231	1
9-3-2/M82	1.25589	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.01414	1
IL2-6/WTpooled	0.72991	0.473
IL7-5/WTpooled	0.93902	1
IL7-3/WTpooled	1.16805	1
IL12-4/WTpooled	1.11833	0.646
IL1-4/WTpooled	0.97589	0.699
WT/WTpooled	1.01099	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	1.03855	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03989	0.921
DC3000/delta hrp 6h	0.98893	0.95
DC3000/delta hrp 12h	0.92943	1
DC3000/delta hrp 24h	1.17225	0.254

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.94497	0.955
DC3000 delta B/DC3000 delta AB	1.16088	0.225

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.26354	1
Exp 36h	1.23212	0.326
Exp 60h	1.24004	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	1.03025	1
Var 0h	1.08778	0.782
Var 12h I row2-row1	0.98546	0.948
Var 12h NI row2-row1	1.08664	0.266
Var 36h I row2-row1	1.10108	0.309
Var 36h NI row2-row1	0.88879	0.432
Var 60h I row2-row1	0.80644	0.306
Var 60h NI row2-row1	0.95508	0.572
Time course 0hI-0hNI	0.98398	0.917
Time course 12hI-12hNI	1.08972	0.066
Time course 36hI-36hNI	1.26035	0.006
Time course 60hI-60hNI	1.8479	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)	1.09564	0.256
transgenic ySAMdc/azygous control (breaker)	0.8464	0.131
transgenic ySAMdc/azygous control (red)	1.07657	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05222	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.59809	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98051	1
Manapal/WT (break)	0.92479	1
Manapal/WT (red)	0.79847	0.242