Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.11.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9072	0.551
27DAP/17DAP	0.92193	0.843
39DAP/27DAP	1.12063	0.702
41DAP/39DAP	1.03728	0.85
42DAP/41DAP	0.96395	1
43DAP/42DAP	0.95948	0.906
47DAP/43DAP	1.18841	0.659
52DAP/47DAP	0.96946	0.884
57DAP/52DAP	1.06063	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07347	0.522
17DAP/reference	1.07912	0.143
27DAP/reference	0.9954	0.822
39DAP/reference	1.06777	0.377
41DAP/reference	1.09252	0.203
42DAP/reference	0.93882	0.091
43DAP/reference	1.07093	0.34
47DAP/reference	1.00419	1
52DAP/reference	0.85723	0.079
57DAP/reference	0.99339	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.3033	0.29
27DAP/17DAP	0.85788	0.446
39DAP/27DAP	0.90125	0.482
41DAP/39DAP	1.0329	0.876
42DAP/41DAP	0.91264	0.635
43DAP/42DAP	0.97263	0.831
47DAP/43DAP	1.10041	0.61
52DAP/47DAP	1.10162	0.718
57DAP/52DAP	0.74065	0.137
57DAP/7DAP	1.05801	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.64411	0.033
17DAP/reference	2.41238	0.006
27DAP/reference	1.97866	0.008
39DAP/reference	2.34322	0.006
41DAP/reference	2.43121	0.009
42DAP/reference	2.02098	0.006
43DAP/reference	2.54973	0.009
47DAP/reference	1.8048	0.127
52DAP/reference	1.91632	0.01
57DAP/reference	1.90888	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27933	0.106
17DAP/reference	1.07464	0.599
27DAP/reference	1.06645	0.781
39DAP/reference	0.94615	0.298
41DAP/reference	0.92887	0.242
42DAP/reference	0.87548	0.073
43DAP/reference	1.09273	0.831
47DAP/reference	0.96221	0.27
52DAP/reference	0.8074	0.111
57DAP/reference	0.87795	0.278

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.76708	0.037
17DAP/reference	1.47499	0.189
27DAP/reference	3.38842	0.012
39DAP/reference	2.64661	0.004
41DAP/reference	1.83974	0.011
42DAP/reference	2.07243	0.01
43DAP/reference	1.88285	0.082
47DAP/reference	1.0123	1
52DAP/reference	2.20051	0.072
57DAP/reference	1.30631	0.939

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95261	1
26DAP/20DAP	1.11763	0.635
34DAP/26DAP	0.90375
51DAP/34DAP	1.1413	0.795
52DAP/51DAP	0.92422	1
53DAP/52DAP	0.72415	0.049
55DAP/53DAP	0.95897	0.807
57DAP/55DAP	0.81561	0.356
62DAP/57DAP	0.99796	0.994
68DAP/62DAP	0.88363	0.747
68DAP/14DAP	0.50581	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.72514	0.035

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.5124
Mature Green Tomato/Ripe Tomato	0.78691	0.226
Immature Eggplant/Mature Eggplant	1.76795
Ripe Pepper/Ripe Tomato	2.47106	0.256
Mature Eggplant/Ripe Tomato	0.86825

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03589	1
1-1-2/M82	0.88848	0.958
12-2/M82	0.9723	1
12-4/M82	0.96827	1
1-3/M82	0.54855
2-1-1/M82	1.03893
2-1/M82	N/A	N/A
2-6/M82	1.07247	0.695
3-2/M82	N/A	N/A
4-1-1/M82	0.82461
4-1/M82	1.02552
4-3-2/M82	1.13422	0.284
4-3/M82	N/A	N/A
5-3/M82	1.02167	1
6-2/M82	0.49196
6-3/M82	1.03519	1
7-1/M82	1.02009
7-2/M82	0.72823	0.796
9-3-2/M82	1.06323	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.835	0.348
IL7-5/WTpooled	1.3886
IL7-3/WTpooled	1.11372	1
IL12-4/WTpooled	1.11098	0.839
IL1-4/WTpooled	0.93125	0.699
WT/WTpooled	0.98876	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	1.29345	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.22329	0.921
DC3000/delta hrp 6h	1.09245	1
DC3000/delta hrp 12h	0.9593	1
DC3000/delta hrp 24h	1.01247	0.84

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	1.11624	1
Exp 36h	0.88307	0.41
Exp 60h	1.10677	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95334	1
Var 0h	1.02103	0.98
Var 12h I row2-row1	0.99809	0.406
Var 12h NI row2-row1	1.00944	0.266
Var 36h I row2-row1	0.9808	1
Var 36h NI row2-row1	0.97418	0.61
Var 60h I row2-row1	1.02974	1
Var 60h NI row2-row1	0.67965	0.431
Time course 0hI-0hNI	1.0186	1
Time course 12hI-12hNI	1.15224	0.089
Time course 36hI-36hNI	0.9208	0.33
Time course 60hI-60hNI	0.9766	0.646

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)	1.06351	0.325
transgenic ySAMdc/azygous control (breaker)	0.93126	0.49
transgenic ySAMdc/azygous control (red)	1.00878	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98563	0.418

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73396	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.15783	0.307
Manapal/WT (break)	0.96681	1
Manapal/WT (red)	0.98465	0.863