Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.2.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84219	0.285
27DAP/17DAP	0.93868	0.894
39DAP/27DAP	1.1246	0.765
41DAP/39DAP	0.75879	0.171
42DAP/41DAP	1.18142	0.825
43DAP/42DAP	1.03968	1
47DAP/43DAP	1.08421	0.926
52DAP/47DAP	1.27792	0.545
57DAP/52DAP	1.27152	0.837

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15076	0.23
17DAP/reference	0.93067	0.091
27DAP/reference	0.94597	0.194
39DAP/reference	0.96582	0.342
41DAP/reference	1.00851	0.855
42DAP/reference	1.17069	0.007
43DAP/reference	1.08316	0.36
47DAP/reference	1.27074	0.001
52DAP/reference	1.80452	0.009
57DAP/reference	1.27286	0.132

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.56644	0.038
27DAP/17DAP	1.35967	0.1
39DAP/27DAP	0.76284	0.09
41DAP/39DAP	1.22772	0.914
42DAP/41DAP	1.01038	0.825
43DAP/42DAP	1.04508	0.699
47DAP/43DAP	0.94734	0.666
52DAP/47DAP	0.90228	0.612
57DAP/52DAP	0.81798	0.213
57DAP/7DAP	0.50261	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.15057	0.027
17DAP/reference	1.40485	0.012
27DAP/reference	0.804	0.016
39DAP/reference	0.83499	0.126
41DAP/reference	1.12766	0.524
42DAP/reference	1.06747	0.889
43DAP/reference	0.97595	0.502
47DAP/reference	1.25504	0.033
52DAP/reference	0.96344	0.477
57DAP/reference	0.92561	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13659	0.538
17DAP/reference	1.29489	0.25
27DAP/reference	1.66173	0.092
39DAP/reference	1.43497	0.04
41DAP/reference	1.59116	0.014
42DAP/reference	1.25917	0.207
43DAP/reference	1.44031	0.569
47DAP/reference	1.02622	0.943
52DAP/reference	1.16806	0.114
57DAP/reference	1.01639	0.98

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.58402	0.016
17DAP/reference	1.518	0.201
27DAP/reference	1.04961	0.721
39DAP/reference	1.14448	0.039
41DAP/reference	0.87037	0.371
42DAP/reference	1.22214	0.45
43DAP/reference	1.43435	0.154
47DAP/reference	1.15694	0.372
52DAP/reference	0.96596	0.596
57DAP/reference	2.07648	0.007

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.143	0.966
26DAP/20DAP	2.07818	0.098
34DAP/26DAP	1.00941	1
51DAP/34DAP	0.97991	0.856
52DAP/51DAP	1.24952	0.035
53DAP/52DAP	0.58647	0.049
55DAP/53DAP	0.62935	0.024
57DAP/55DAP	1.69748	0.311
62DAP/57DAP	1.10313	0.935
68DAP/62DAP	1.00243	0.914
68DAP/14DAP	1.64394	0.346

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0417	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.776	0.23
Mature Green Tomato/Ripe Tomato	0.57525	0.047
Immature Eggplant/Mature Eggplant	0.6554	0.07
Ripe Pepper/Ripe Tomato	0.54067	0.224
Mature Eggplant/Ripe Tomato	0.55428	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.14088	0.877
1-1-2/M82	1.05114	1
12-2/M82	0.99309	1
12-4/M82	1.01472	1
1-3/M82	1.83761	0.479
2-1-1/M82	0.93407	1
2-1/M82	1.13854	1
2-6/M82	0.87199	1
3-2/M82	1.14573
4-1-1/M82	0.96065	1
4-1/M82	0.85939
4-3-2/M82	1.36221
4-3/M82	1.16247	1
5-3/M82	1.38196	0.572
6-2/M82	1.20108	1
6-3/M82	1.55927
7-1/M82	1.14999	0.87
7-2/M82	1.19868	0.385
9-3-2/M82	1.0123	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.82835
IL2-6/WTpooled	1.546	0.584
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.90092	0.418
IL12-4/WTpooled	0.98234	1
IL1-4/WTpooled	1.10396
WT/WTpooled	0.95745	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	1.21735	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96191	1
DC3000/delta hrp 6h	1.08807	1
DC3000/delta hrp 12h	1.16288	1
DC3000/delta hrp 24h	0.8478	0.136

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.98966	1
DC3000 delta B/DC3000 delta AB	1.1244	0.398

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.91945	1
Exp 36h	1.14001	0.693
Exp 60h	1.12488	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97072	1
Var 0h	0.87071	0.933
Var 12h I row2-row1	1.30843	0.613
Var 12h NI row2-row1	1.21625	0.649
Var 36h I row2-row1	1.07368	1
Var 36h NI row2-row1	1.24273	1
Var 60h I row2-row1	0.87089	0.439
Var 60h NI row2-row1	0.96083	1
Time course 0hI-0hNI	0.944	0.698
Time course 12hI-12hNI	1.02637	0.867
Time course 36hI-36hNI	1.3442	0.023
Time course 60hI-60hNI	2.92867	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)	1.22981	0.261
transgenic ySAMdc/azygous control (breaker)	1.31857	0.161
transgenic ySAMdc/azygous control (red)	0.87718	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07566	0.092

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.91586	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.12651	0.14
Manapal/WT (break)	0.80394	1
Manapal/WT (red)	1.02494	1