Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.2.6.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93394	0.617
27DAP/17DAP	0.981	1
39DAP/27DAP	1.05576	0.995
41DAP/39DAP	1.25743	0.403
42DAP/41DAP	0.88231	1
43DAP/42DAP	0.87619	0.761
47DAP/43DAP	0.9184	0.68
52DAP/47DAP	1.39819	0.534
57DAP/52DAP	0.86174	0.85

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79199	0.039
17DAP/reference	0.97121	0.448
27DAP/reference	0.95143	0.395
39DAP/reference	0.90285	0.097
41DAP/reference	0.87173	0.021
42DAP/reference	0.87549	0.015
43DAP/reference	1.00532	1
47DAP/reference	0.9198	0.055
52DAP/reference	0.98543	0.546
57DAP/reference	0.96921	0.34

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87648	0.299
27DAP/17DAP	1.08147	0.848
39DAP/27DAP	0.99952	1
41DAP/39DAP	1.05417	0.853
42DAP/41DAP	1.01807	0.936
43DAP/42DAP	1.0717	0.413
47DAP/43DAP	0.98663	0.939
52DAP/47DAP	0.97393	0.901
57DAP/52DAP	0.96616	0.695
57DAP/7DAP	0.98491	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04622	0.813
17DAP/reference	0.83451	0.011
27DAP/reference	0.81378	0.012
39DAP/reference	0.7797	0.011
41DAP/reference	0.81682	0.026
42DAP/reference	0.81496	0.012
43DAP/reference	0.75299	0.011
47DAP/reference	0.92742	0.383
52DAP/reference	0.76628	0.021
57DAP/reference	0.8053	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95215	0.503
17DAP/reference	0.93998	0.208
27DAP/reference	0.96183	0.34
39DAP/reference	0.92669	0.102
41DAP/reference	0.89562	0.03
42DAP/reference	0.89361	0.098
43DAP/reference	0.95897	0.494
47DAP/reference	0.83168	0.015
52DAP/reference	0.95568	0.28
57DAP/reference	0.89327	0.125

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88422	0.183
17DAP/reference	0.96275	0.579
27DAP/reference	0.80035	0.041
39DAP/reference	0.76961	0.014
41DAP/reference	0.90944	0.185
42DAP/reference	0.79069	0.108
43DAP/reference	0.82709	0.079
47DAP/reference	0.99135	0.61
52DAP/reference	1.15004	0.747
57DAP/reference	0.91021	0.253

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99127	1
26DAP/20DAP	0.90068	0.512
34DAP/26DAP	0.97853	0.97
51DAP/34DAP	1.13973	0.535
52DAP/51DAP	1.01511	0.873
53DAP/52DAP	1.07655	0.58
55DAP/53DAP	0.88407	0.21
57DAP/55DAP	0.8774	0.568
62DAP/57DAP	0.99595	0.994
68DAP/62DAP	2.06559	0.017
68DAP/14DAP	2.06976	0.223

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87966	0.269

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.97084	0.058
Mature Green Tomato/Ripe Tomato	0.86261	0.055
Immature Eggplant/Mature Eggplant	0.83444	0.144
Ripe Pepper/Ripe Tomato	3.43497	1
Mature Eggplant/Ripe Tomato	3.67589	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02716	1
1-1-2/M82	0.88097	0.958
12-2/M82	0.97287	0.955
12-4/M82	0.97948	1
1-3/M82	1.01425	1
2-1-1/M82	1.03491	1
2-1/M82	N/A	N/A
2-6/M82	1.00746	1
3-2/M82	0.96549	1
4-1-1/M82	0.97359	1
4-1/M82	1.12765	0.853
4-3-2/M82	1.00259	1
4-3/M82	0.9059	1
5-3/M82	0.99883	1
6-2/M82	N/A	N/A
6-3/M82	1.04957	1
7-1/M82	0.94136
7-2/M82	1.01814	1
9-3-2/M82	0.88153	0.449

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	1.37329	0.516
IL1-4/WTpooled	1.41562	1
WT/WTpooled	1.56293

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	1.21925	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13619	0.774
DC3000/delta hrp 6h	1.06469	0.95
DC3000/delta hrp 12h	1.08292	1
DC3000/delta hrp 24h	0.98045	0.91

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	1.00112	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.80552	1
Exp 36h	1.07106	1
Exp 60h	0.88311	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99732	1
Var 0h	0.78802	1
Var 12h I row2-row1	1.02272	0.58
Var 12h NI row2-row1	1.25041	1
Var 36h I row2-row1	0.92192	1
Var 36h NI row2-row1	0.84586	0.61
Var 60h I row2-row1	1.19819	0.562
Var 60h NI row2-row1	1.05683	1
Time course 0hI-0hNI	1.07217	0.833
Time course 12hI-12hNI	1.02452	0.827
Time course 36hI-36hNI	0.93652	0.215
Time course 60hI-60hNI	1.2603	0.022

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)	0.90985	0.315
transgenic ySAMdc/azygous control (breaker)	0.9252	0.49
transgenic ySAMdc/azygous control (red)	1.05816	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98461	0.552

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)	1.02972	1
Manapal/WT (break)	1.4817	0.183
Manapal/WT (red)	1.27388	0.222