Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.2.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.20731	0.031
27DAP/17DAP	0.6765	0.151
39DAP/27DAP	0.69948	0.443
41DAP/39DAP	0.84747	0.47
42DAP/41DAP	1.02053	1
43DAP/42DAP	0.98714	0.93
47DAP/43DAP	0.93936	0.773
52DAP/47DAP	1.17135	0.787
57DAP/52DAP	0.84468	0.779

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89099	0.132
17DAP/reference	0.87206	0.053
27DAP/reference	0.88266	0.249
39DAP/reference	0.84923	0.03
41DAP/reference	0.77266	0.009
42DAP/reference	0.94997	0.081
43DAP/reference	0.96743	0.653
47DAP/reference	1.01941	1
52DAP/reference	1.25271	0.388
57DAP/reference	1.57073	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.419	0.053
27DAP/17DAP	0.71387	0.144
39DAP/27DAP	0.64293	0.044
41DAP/39DAP	1.37419	0.03
42DAP/41DAP	0.84958	0.234
43DAP/42DAP	0.7134	0.039
47DAP/43DAP	1.20304	0.844
52DAP/47DAP	0.98822	0.902
57DAP/52DAP	1.09896	0.895
57DAP/7DAP	0.70471	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19118	0.177
17DAP/reference	1.63085	0.008
27DAP/reference	1.23897	0.107
39DAP/reference	1.33768	0.036
41DAP/reference	1.3174	0.03
42DAP/reference	1.76358	0.01
43DAP/reference	1.39356	0.009
47DAP/reference	1.21785	0.136
52DAP/reference	1.24139	0.015
57DAP/reference	1.20992	0.019

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92163	0.134
17DAP/reference	0.84628	0.287
27DAP/reference	0.84499	0.032
39DAP/reference	1.09168	0.571
41DAP/reference	0.89186	0.164
42DAP/reference	1.00042	1
43DAP/reference	0.83849	0.108
47DAP/reference	0.98003	0.5
52DAP/reference	0.83204	0.013
57DAP/reference	0.79471	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26137	0.237
17DAP/reference	1.3028	0.343
27DAP/reference	1.52724	0.025
39DAP/reference	1.204	0.057
41DAP/reference	1.34634	0.018
42DAP/reference	1.2493	0.124
43DAP/reference	1.10629	0.412
47DAP/reference	1.13188	0.218
52DAP/reference	1.01831	1
57DAP/reference	1.3635	0.009

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06575	0.966
26DAP/20DAP	1.15918	0.785
34DAP/26DAP	0.72804	0.2
51DAP/34DAP	0.89895	0.624
52DAP/51DAP	1.22198	0.651
53DAP/52DAP	0.96927	0.862
55DAP/53DAP	1.0447	0.925
57DAP/55DAP	1.11823	0.955
62DAP/57DAP	N/A	N/A
68DAP/62DAP	N/A	N/A
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00809	0.774

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.30314	0.058
Mature Green Tomato/Ripe Tomato	4.29614	0.07
Immature Eggplant/Mature Eggplant	0.71543	0.072
Ripe Pepper/Ripe Tomato	0.64219	0.224
Mature Eggplant/Ripe Tomato	10.5064	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.20852
1-1-2/M82	1.3009
12-2/M82	N/A	N/A
12-4/M82	1.19933	1
1-3/M82	0.52309	0.378
2-1-1/M82	0.72778
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.78738
4-1-1/M82	N/A	N/A
4-1/M82	2.24751
4-3-2/M82	1.71777
4-3/M82	N/A	N/A
5-3/M82	0.97453	1
6-2/M82	0.83524
6-3/M82	0.7983
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	3.85909	0.277
IL2-6/WTpooled	0.86263	1
IL7-5/WTpooled	1.06569	1
IL7-3/WTpooled	7.62531	1
IL12-4/WTpooled	1.87838	0.516
IL1-4/WTpooled	5.19952	0.426
WT/WTpooled	0.88184	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	1.0642	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99373	1
DC3000/delta hrp 6h	0.93835	0.95
DC3000/delta hrp 12h	1.16372	1
DC3000/delta hrp 24h	1.16735	0.422

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.79845
DC3000 delta B/DC3000 delta AB	0.90972	0.406

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92677	1
Exp 36h	0.86015	0.699
Exp 60h	0.56611	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	0.96575
Var 0h	0.57734	1
Var 12h I row2-row1	0.77311	0.338
Var 12h NI row2-row1	1.03921	1
Var 36h I row2-row1	0.95745	1
Var 36h NI row2-row1	1.15781	1
Var 60h I row2-row1	0.88173
Var 60h NI row2-row1	1.01111	1
Time course 0hI-0hNI	0.92034	0.37
Time course 12hI-12hNI	0.82587	0.113
Time course 36hI-36hNI	0.73021	0.025
Time course 60hI-60hNI	0.41156	0.006

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)	0.91289	0.314
transgenic ySAMdc/azygous control (breaker)	1.04398	1
transgenic ySAMdc/azygous control (red)	1.03203	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.89134	0.112

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88124	0.35

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.64138	1
Manapal/WT (break)	1.16017	0.183
Manapal/WT (red)	1.04878	1