Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.17.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20102	0.904
27DAP/17DAP	1.27025	0.859
39DAP/27DAP	1.33195	0.838
41DAP/39DAP	1.51194	0.498
42DAP/41DAP	1.04588	1
43DAP/42DAP	1.02119	0.937
47DAP/43DAP	0.89108	0.625
52DAP/47DAP	0.97956	0.793
57DAP/52DAP	1.25246	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25959	0.46
17DAP/reference	0.8127	0.031
27DAP/reference	1.1248	0.277
39DAP/reference	0.90096	0.254
41DAP/reference	0.98921	0.814
42DAP/reference	1.26712	0.13
43DAP/reference	1.06563	0.678
47DAP/reference	1.38796	0.008
52DAP/reference	1.79189	0.011
57DAP/reference	1.66412	0.014

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98254	0.75
27DAP/17DAP	0.92644	0.782
39DAP/27DAP	0.95329	0.692
41DAP/39DAP	1.03733	0.921
42DAP/41DAP	0.99563	0.812
43DAP/42DAP	1.11059	0.478
47DAP/43DAP	1.04792	0.998
52DAP/47DAP	0.99693	0.947
57DAP/52DAP	1.25982	0.19
57DAP/7DAP	1.14333	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87517	0.296
17DAP/reference	0.79931	0.049
27DAP/reference	0.73638	0.031
39DAP/reference	0.952	0.307
41DAP/reference	0.82213	0.111
42DAP/reference	0.69761	0.019
43DAP/reference	0.74958	0.013
47DAP/reference	1.10241	0.549
52DAP/reference	0.9933	0.571
57DAP/reference	0.88331	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89464	0.441
17DAP/reference	1.17862	0.459
27DAP/reference	1.07137	0.902
39DAP/reference	1.27733	0.052
41DAP/reference	1.32745	0.012
42DAP/reference	1.28414	0.091
43DAP/reference	1.0947	0.817
47DAP/reference	1.03365	0.965
52DAP/reference	1.5172	0.01
57DAP/reference	0.87304	0.208

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90385	0.311
17DAP/reference	0.94422	0.56
27DAP/reference	1.04258	0.834
39DAP/reference	0.97267	0.544
41DAP/reference	0.96637	0.56
42DAP/reference	1.11489	0.627
43DAP/reference	1.62279	0.018
47DAP/reference	1.04124	1
52DAP/reference	0.83705	0.36
57DAP/reference	1.4035	0.228

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.94966	0.966
26DAP/20DAP	1.60834	0.453
34DAP/26DAP	1.31089	1
51DAP/34DAP	1.27297	0.988
52DAP/51DAP	1.06719	1
53DAP/52DAP	0.83122
55DAP/53DAP	1.49393	0.629
57DAP/55DAP	1.20378	0.694
62DAP/57DAP	1.15365	0.902
68DAP/62DAP	1.17232	0.945
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.03023	0.081

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	4.29252	0.26

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	N/A	N/A
12-4/M82	N/A	N/A
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	N/A	N/A
3-2/M82	N/A	N/A
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	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	0.7544	0.243
IL2-6/WTpooled	0.9784	1
IL7-5/WTpooled	0.85015	1
IL7-3/WTpooled	0.82883	1
IL12-4/WTpooled	1.1245	0.737
IL1-4/WTpooled	0.99467	1
WT/WTpooled	1.00792	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	1.27822	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05316	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.56592	0.082

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08292	0.441
DC3000 delta B/DC3000 delta AB	1.2419	0.335

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
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	0.99822	1
Var 0h	1.29581	0.936
Var 12h I row2-row1	0.89396	0.363
Var 12h NI row2-row1	1.31021	0.281
Var 36h I row2-row1	1.17113	0.368
Var 36h NI row2-row1	1.12242	1
Var 60h I row2-row1	0.78532	0.582
Var 60h NI row2-row1	0.92743	1
Time course 0hI-0hNI	0.96966	0.863
Time course 12hI-12hNI	0.92538	0.497
Time course 36hI-36hNI	0.98708	0.611
Time course 60hI-60hNI	0.8942	0.161

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.9295	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.21775	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.15237	1
Manapal/WT (break)	0.98606	1
Manapal/WT (red)	1.83525	0.134