Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.6.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98517	0.839
27DAP/17DAP	1.09114	0.872
39DAP/27DAP	1.07142	0.903
41DAP/39DAP	1.36956	0.201
42DAP/41DAP	1.02864	1
43DAP/42DAP	0.86585	0.759
47DAP/43DAP	1.10892	0.856
52DAP/47DAP	1.96014	0.226
57DAP/52DAP	0.88803	0.833

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93466	0.317
17DAP/reference	1.01558	0.843
27DAP/reference	1.00189	0.904
39DAP/reference	1.15087	0.224
41DAP/reference	0.98957	0.814
42DAP/reference	0.90892	0.034
43DAP/reference	0.99224	0.82
47DAP/reference	0.96339	0.3
52DAP/reference	1.01647	0.951
57DAP/reference	1.01171	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92022	0.509
27DAP/17DAP	1.1222	0.811
39DAP/27DAP	1.01774	0.874
41DAP/39DAP	1.06948	0.876
42DAP/41DAP	0.99802	0.812
43DAP/42DAP	0.99534	0.991
47DAP/43DAP	1.03834	0.906
52DAP/47DAP	0.96198	0.876
57DAP/52DAP	0.89429	0.498
57DAP/7DAP	1.10832	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80555	0.129
17DAP/reference	0.82114	0.064
27DAP/reference	0.74835	0.015
39DAP/reference	0.61131	0.011
41DAP/reference	0.7061	0.02
42DAP/reference	0.67998	0.012
43DAP/reference	0.65273	0.016
47DAP/reference	0.81983	0.168
52DAP/reference	0.73916	0.035
57DAP/reference	0.69832	0.071

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92903	0.412
17DAP/reference	1.01104	0.873
27DAP/reference	1.11616	0.388
39DAP/reference	1.01888	0.769
41DAP/reference	1.1235	0.248
42DAP/reference	1.06517	0.555
43DAP/reference	1.31645	0.146
47DAP/reference	1.16401	0.264
52DAP/reference	1.18782	0.009
57DAP/reference	1.22595	0.052

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75832	0.026
17DAP/reference	0.92311	0.398
27DAP/reference	0.68432	0.038
39DAP/reference	0.79413	0.043
41DAP/reference	0.92108	0.331
42DAP/reference	0.7663	0.059
43DAP/reference	0.79256	0.041
47DAP/reference	0.86867	0.191
52DAP/reference	0.6792	0.071
57DAP/reference	0.99292	0.652

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06232	0.916
26DAP/20DAP	1.00844	1
34DAP/26DAP	0.8514	0.712
51DAP/34DAP	1.05331	0.597
52DAP/51DAP	1.01679	0.915
53DAP/52DAP	0.99107	0.897
55DAP/53DAP	1.14926	0.394
57DAP/55DAP	0.96352	0.757
62DAP/57DAP	0.9161	0.994
68DAP/62DAP	0.60845
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.86049	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.89419	0.411
Immature Eggplant/Mature Eggplant	1.65963
Ripe Pepper/Ripe Tomato	0.74805	1
Mature Eggplant/Ripe Tomato	0.78568	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96806	0.961
1-1-2/M82	1.03437	1
12-2/M82	1.15488	1
12-4/M82	1.00965	1
1-3/M82	0.92855	0.378
2-1-1/M82	1.09837	0.764
2-1/M82	N/A	N/A
2-6/M82	1.07908	0.594
3-2/M82	0.77861
4-1-1/M82	0.94828	1
4-1/M82	1.00547	1
4-3-2/M82	0.79418	0.487
4-3/M82	0.8496	1
5-3/M82	1.0369	1
6-2/M82	0.72326
6-3/M82	1.07906	1
7-1/M82	1.14644
7-2/M82	1.03879	1
9-3-2/M82	0.82747	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.99033	1
IL2-6/WTpooled	1.10265	0.584
IL7-5/WTpooled	1.18681	0.792
IL7-3/WTpooled	1.05464	1
IL12-4/WTpooled	0.79177	0.581
IL1-4/WTpooled	1.00898	1
WT/WTpooled	0.93412	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	1.04311	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00318	1
DC3000/delta hrp 6h	0.84754	0.95
DC3000/delta hrp 12h	1.072	1
DC3000/delta hrp 24h	1.09297	0.483

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	0.95367	0.693

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.19053	0.254
Exp 36h	1.06804	1
Exp 60h	1.45073	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98488	1
Var 0h	1.04458	0.98
Var 12h I row2-row1	1.25759	0.348
Var 12h NI row2-row1	0.90915	0.627
Var 36h I row2-row1	0.92024	1
Var 36h NI row2-row1	0.94319	0.645
Var 60h I row2-row1	1.51952	1
Var 60h NI row2-row1	1.17924	0.904
Time course 0hI-0hNI	1.12632	0.852
Time course 12hI-12hNI	1.00987	0.9
Time course 36hI-36hNI	0.8818	0.26
Time course 60hI-60hNI	1.29688	0.029

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)	1.22986	0.384
transgenic ySAMdc/azygous control (breaker)	0.56393	0.118
transgenic ySAMdc/azygous control (red)	1.00102	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01042	0.687

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)	0.70405	0.172
Manapal/WT (break)	0.97133	1
Manapal/WT (red)	0.93738	0.728