Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.9.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11525	0.827
27DAP/17DAP	1.15775	0.845
39DAP/27DAP	0.92301	0.631
41DAP/39DAP	1.01145	0.954
42DAP/41DAP	0.96618	1
43DAP/42DAP	1.02738	0.937
47DAP/43DAP	1.07947	0.842
52DAP/47DAP	1.38307	0.584
57DAP/52DAP	0.97243	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00593	1
17DAP/reference	1.00975	0.457
27DAP/reference	0.99563	0.822
39DAP/reference	0.95499	0.437
41DAP/reference	1.01771	0.855
42DAP/reference	0.97433	0.134
43DAP/reference	1.01433	0.899
47DAP/reference	0.93231	0.019
52DAP/reference	0.9895	0.598
57DAP/reference	0.83743	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98091	0.732
27DAP/17DAP	0.99837	0.969
39DAP/27DAP	1.06751	0.483
41DAP/39DAP	1.06073	0.817
42DAP/41DAP	0.94975	0.635
43DAP/42DAP	0.97323	0.558
47DAP/43DAP	0.98266	0.896
52DAP/47DAP	1.02436	0.933
57DAP/52DAP	1.02068	0.917
57DAP/7DAP	1.13879	0.132

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94357	0.246
17DAP/reference	1.00058	1
27DAP/reference	0.97063	0.159
39DAP/reference	0.99062	0.354
41DAP/reference	0.92112	0.133
42DAP/reference	0.88628	0.012
43DAP/reference	0.92717	0.21
47DAP/reference	0.96498	0.293
52DAP/reference	0.94862	0.363
57DAP/reference	0.93754	0.128

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08687	0.261
17DAP/reference	1.04995	0.367
27DAP/reference	0.9906	0.642
39DAP/reference	0.9168	0.189
41DAP/reference	0.99234	0.557
42DAP/reference	0.92355	0.237
43DAP/reference	1.11414	0.205
47DAP/reference	0.94204	0.168
52DAP/reference	1.11305	0.114
57DAP/reference	1.13363	0.314

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02101	0.882
17DAP/reference	1.05254	0.706
27DAP/reference	0.9163	0.089
39DAP/reference	1.00909	0.885
41DAP/reference	0.9582	0.237
42DAP/reference	0.86476	0.172
43DAP/reference	0.90031	0.256
47DAP/reference	0.99564	0.667
52DAP/reference	1.04744	0.674
57DAP/reference	0.6999	0.035

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07031	0.945
26DAP/20DAP	0.96098	1
34DAP/26DAP	0.9874	1
51DAP/34DAP	0.91936	0.235
52DAP/51DAP	1.021	0.842
53DAP/52DAP	0.95218	0.712
55DAP/53DAP	1.05026
57DAP/55DAP	1.13397	0.287
62DAP/57DAP	1.07475	0.767
68DAP/62DAP	1.11966	0.89
68DAP/14DAP	0.98357	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89765	0.137

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.56179	0.025
Immature Eggplant/Mature Eggplant	3.4219	0.05
Ripe Pepper/Ripe Tomato	0.16324	0.224
Mature Eggplant/Ripe Tomato	0.82438	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02382	1
1-1-2/M82	1.13786	1
12-2/M82	1.00895	1
12-4/M82	1.02003
1-3/M82	0.88273	0.501
2-1-1/M82	0.94088	1
2-1/M82	1.11037
2-6/M82	1.01332	1
3-2/M82	1.00311
4-1-1/M82	0.94554	1
4-1/M82	0.96814	1
4-3-2/M82	1.11507
4-3/M82	1.01678	1
5-3/M82	1.12898	1
6-2/M82	0.93944	1
6-3/M82	1.00323	1
7-1/M82	1.00237	1
7-2/M82	1.01837	1
9-3-2/M82	0.91522

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.84488	1
IL2-6/WTpooled	1.06211	0.659
IL7-5/WTpooled	1.69383
IL7-3/WTpooled	0.81536	1
IL12-4/WTpooled	0.78953	0.581
IL1-4/WTpooled	1.13796
WT/WTpooled	0.92699	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	1.32125	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02016	1
DC3000/delta hrp 6h	0.66982	0.95
DC3000/delta hrp 12h	1.0324	1
DC3000/delta hrp 24h	1.05495	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.01397	0.598
DC3000 delta B/DC3000 delta AB	1.04158	0.579

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	0.98147	1
Var 0h	1.02047	1
Var 12h I row2-row1	1.11694	0.283
Var 12h NI row2-row1	0.95018	0.466
Var 36h I row2-row1	1.06597	1
Var 36h NI row2-row1	0.89508	0.645
Var 60h I row2-row1	1.01081	1
Var 60h NI row2-row1	0.8602	0.756
Time course 0hI-0hNI	1.09114	0.852
Time course 12hI-12hNI	0.96243	0.795
Time course 36hI-36hNI	0.98282	0.569
Time course 60hI-60hNI	1.36004	0.042

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)	6.67808	0.297
transgenic ySAMdc/azygous control (breaker)	0.46986	0.139
transgenic ySAMdc/azygous control (red)	1.02688	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0276	0.261

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93979	0.284

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.32112	0.105
Manapal/WT (break)	0.87911	1
Manapal/WT (red)	0.6663	0.181