Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.19.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11509	0.904
27DAP/17DAP	0.87099	0.779
39DAP/27DAP	0.96824	0.7
41DAP/39DAP	0.96296	0.795
42DAP/41DAP	0.76374	1
43DAP/42DAP	0.89692	0.813
47DAP/43DAP	0.98825	0.804
52DAP/47DAP	1.21012	0.787
57DAP/52DAP	0.84039	0.605

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00133	1
17DAP/reference	0.93245	0.224
27DAP/reference	0.97012	0.444
39DAP/reference	1.03773	0.639
41DAP/reference	0.95216	0.434
42DAP/reference	1.0183	1
43DAP/reference	0.9201	0.18
47DAP/reference	1.05326	0.627
52DAP/reference	1.0618	0.453
57DAP/reference	0.99508	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81312	0.158
27DAP/17DAP	0.92662	0.854
39DAP/27DAP	1.05584	0.984
41DAP/39DAP	1.17554	0.748
42DAP/41DAP	0.96724	0.757
43DAP/42DAP	0.99316	0.991
47DAP/43DAP	1.10867	0.664
52DAP/47DAP	0.91115	0.6
57DAP/52DAP	1.09818	0.448
57DAP/7DAP	1.44581	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81601	0.104
17DAP/reference	0.88289	0.024
27DAP/reference	0.96367	0.402
39DAP/reference	0.96063	0.411
41DAP/reference	1.07499	0.56
42DAP/reference	1.03129	0.889
43DAP/reference	0.97254	0.44
47DAP/reference	0.93115	0.383
52DAP/reference	0.92676	0.232
57DAP/reference	0.94646	0.28

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19846	0.213
17DAP/reference	1.06954	0.806
27DAP/reference	1.06846	0.757
39DAP/reference	1.13524	0.401
41DAP/reference	0.99011	0.531
42DAP/reference	1.09951	0.294
43DAP/reference	1.4005	0.146
47DAP/reference	1.08607	0.087
52DAP/reference	1.20133	0.074
57DAP/reference	1.10342	0.609

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96389	0.391
17DAP/reference	1.114	0.72
27DAP/reference	0.9406	0.243
39DAP/reference	0.94834	0.271
41DAP/reference	1.12974	0.276
42DAP/reference	1.17022	0.175
43DAP/reference	1.07584	0.565
47DAP/reference	1.04117	0.934
52DAP/reference	0.87571	0.256
57DAP/reference	1.21784	0.262

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99198	1
26DAP/20DAP	1.16118	0.594
34DAP/26DAP	1.07223	1
51DAP/34DAP	0.92674	0.66
52DAP/51DAP	1.10625	0.792
53DAP/52DAP	0.97064	0.868
55DAP/53DAP	1.37286	0.537
57DAP/55DAP	1.01336	0.938
62DAP/57DAP	1.17192	0.445
68DAP/62DAP	1.19904	0.507
68DAP/14DAP	1.01241	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.87361	0.224

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.85334
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	2.3557	0.23
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.80823

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09854	1
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.91732	1
1-3/M82	0.7531
2-1-1/M82	0.69586
2-1/M82	N/A	N/A
2-6/M82	0.86499	1
3-2/M82	N/A	N/A
4-1-1/M82	0.9505	1
4-1/M82	0.85194
4-3-2/M82	N/A	N/A
4-3/M82	0.77957
5-3/M82	0.972	1
6-2/M82	0.47827
6-3/M82	0.81355	1
7-1/M82	N/A	N/A
7-2/M82	0.67711	0.434
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.88851
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.36055	0.839
IL1-4/WTpooled	0.61067	0.562
WT/WTpooled	N/A	N/A

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	1.02507	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99244	1
DC3000/delta hrp 6h	1.19937	1
DC3000/delta hrp 12h	0.98007	1
DC3000/delta hrp 24h	0.96079	0.75

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	1.05721	1
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	1.02671	1
Var 0h	0.93505	1
Var 12h I row2-row1	1.2704	0.324
Var 12h NI row2-row1	0.839	0.494
Var 36h I row2-row1	0.74592	0.805
Var 36h NI row2-row1	0.91371	0.645
Var 60h I row2-row1	1.11823	0.562
Var 60h NI row2-row1	1.04873	1
Time course 0hI-0hNI	0.94669	0.738
Time course 12hI-12hNI	1.0299	0.77
Time course 36hI-36hNI	1.05539	0.453
Time course 60hI-60hNI	0.90299	0.081

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)	1.06299	1
transgenic ySAMdc/azygous control (breaker)	0.93471	0.49
transgenic ySAMdc/azygous control (red)	0.97752	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99115	0.609

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.669	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.35038	0.307
Manapal/WT (break)	0.83472	1
Manapal/WT (red)	N/A	N/A