Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.20.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09404	0.927
27DAP/17DAP	1.86528	0.809
39DAP/27DAP	1.01308	0.733
41DAP/39DAP	0.86534	0.615
42DAP/41DAP	1.03236	1
43DAP/42DAP	1.17188	1
47DAP/43DAP	1.10259	0.769
52DAP/47DAP	0.89576	0.711
57DAP/52DAP	0.87263	0.622

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82663	0.098
17DAP/reference	0.85221	0.074
27DAP/reference	1.00738	1
39DAP/reference	0.89847	0.124
41DAP/reference	0.8063	0.016
42DAP/reference	0.87971	0.009
43DAP/reference	1.01279	0.899
47DAP/reference	0.9358	0.116
52DAP/reference	0.97912	0.53
57DAP/reference	1.17373	0.054

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.44552	0.558
27DAP/17DAP	1.04133	0.943
39DAP/27DAP	1.05939	0.691
41DAP/39DAP	1.12711	0.774
42DAP/41DAP	0.65371	0.047
43DAP/42DAP	0.98182	0.774
47DAP/43DAP	0.53079	0.008
52DAP/47DAP	1.50384	0.925
57DAP/52DAP	1.22486	0.574
57DAP/7DAP	0.91929	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11749	0.491
17DAP/reference	0.8629	0.167
27DAP/reference	0.90492	0.058
39DAP/reference	0.84151	0.23
41DAP/reference	0.72923	0.06
42DAP/reference	0.70672	0.01
43DAP/reference	0.94501	0.351
47DAP/reference	1.16643	0.804
52DAP/reference	0.69737	0.028
57DAP/reference	1.02571	0.694

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81721	0.14
17DAP/reference	0.70073	0.004
27DAP/reference	0.84424	0.155
39DAP/reference	0.80517	0.033
41DAP/reference	0.98838	0.531
42DAP/reference	0.85655	0.046
43DAP/reference	0.85096	0.157
47DAP/reference	0.99145	0.625
52DAP/reference	0.94737	0.327
57DAP/reference	0.89653	0.144

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92691	0.335
17DAP/reference	0.87606	0.286
27DAP/reference	0.94296	0.442
39DAP/reference	0.93899	0.163
41DAP/reference	0.84791	0.096
42DAP/reference	0.93227	0.445
43DAP/reference	0.97694	0.614
47DAP/reference	0.85069	0.049
52DAP/reference	1.5332	0.384
57DAP/reference	1.28163	0.184

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07763	0.966
26DAP/20DAP	1.15276	0.663
34DAP/26DAP	1.2645	1
51DAP/34DAP	1.4235	0.232
52DAP/51DAP	3.02702	0.431
53DAP/52DAP	0.9227	0.741
55DAP/53DAP	0.78935	0.203
57DAP/55DAP	1.28986	0.072
62DAP/57DAP	0.73474	0.28
68DAP/62DAP	2.22662	0.017
68DAP/14DAP	2.94102	0.022

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.43835	0.627

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.38628	0.06
Immature Eggplant/Mature Eggplant	2.08762	0.076
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	0.79501
12-4/M82	1.15518	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.98629
3-2/M82	0.93073	1
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.58749
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.05805
IL2-6/WTpooled	0.99173	1
IL7-5/WTpooled	0.98098	1
IL7-3/WTpooled	1.05719	1
IL12-4/WTpooled	1.13783	0.695
IL1-4/WTpooled	0.93274	0.699
WT/WTpooled	0.97683	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08245	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.9441
DC3000/delta hrp 24h	1.05541	0.567

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	1.15253	0.227
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02561	1
Var 0h	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	1.39719	1
Var 36h I row2-row1	1.70737	1
Var 36h NI row2-row1	1.03334
Var 60h I row2-row1	0.85689	0.374
Var 60h NI row2-row1	0.8376
Time course 0hI-0hNI	1.08317	0.852
Time course 12hI-12hNI	0.83841	0.661
Time course 36hI-36hNI	0.96903	0.665
Time course 60hI-60hNI	1.01621	1

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)	1.02938	0.612
transgenic ySAMdc/azygous control (breaker)	1.42809	0.172
transgenic ySAMdc/azygous control (red)	0.99058	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94267	0.12

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88816	0.255

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.18468	0.183
Manapal/WT (red)	0.85039	0.274