Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.10.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92093	0.617
27DAP/17DAP	1.09717	0.859
39DAP/27DAP	1.15091	0.681
41DAP/39DAP	1.36115	0.179
42DAP/41DAP	0.90492	1
43DAP/42DAP	0.77539	0.589
47DAP/43DAP	1.03071	0.884
52DAP/47DAP	1.03996	0.963
57DAP/52DAP	0.76014	0.503

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88075	0.054
17DAP/reference	1.05516	0.306
27DAP/reference	0.939	0.349
39DAP/reference	1.02655	0.386
41DAP/reference	1.0419	0.587
42DAP/reference	0.91253	0.059
43DAP/reference	1.05519	0.495
47DAP/reference	0.86596	0.025
52DAP/reference	0.70886	0.043
57DAP/reference	0.72427	0.019

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95106	0.613
27DAP/17DAP	1.03947	0.909
39DAP/27DAP	1.08243	0.553
41DAP/39DAP	1.03336	0.921
42DAP/41DAP	1.06325	0.783
43DAP/42DAP	1.0626	0.585
47DAP/43DAP	1.00585	1
52DAP/47DAP	0.91894	0.71
57DAP/52DAP	0.97342	0.726
57DAP/7DAP	1.09889	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94235	0.402
17DAP/reference	0.78441	0.011
27DAP/reference	0.81398	0.01
39DAP/reference	0.75097	0.011
41DAP/reference	0.70695	0.018
42DAP/reference	0.77679	0.012
43DAP/reference	0.78383	0.038
47DAP/reference	0.85445	0.222
52DAP/reference	0.75061	0.097
57DAP/reference	0.73623	0.01

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10359	0.397
17DAP/reference	0.98197	0.626
27DAP/reference	0.81124	0.087
39DAP/reference	0.82354	0.11
41DAP/reference	0.75145	0.035
42DAP/reference	0.9106	0.237
43DAP/reference	1.17255	0.23
47DAP/reference	1.05622	0.556
52DAP/reference	0.93079	0.28
57DAP/reference	1.51095	0.097

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82854	0.04
17DAP/reference	1.03211	0.924
27DAP/reference	0.83848	0.055
39DAP/reference	0.84081	0.035
41DAP/reference	0.81561	0.025
42DAP/reference	0.73805	0.023
43DAP/reference	0.6221	0.023
47DAP/reference	0.9752	0.525
52DAP/reference	0.84094	0.141
57DAP/reference	0.52841	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96327	1
26DAP/20DAP	0.74595	0.228
34DAP/26DAP	1.05444	1
51DAP/34DAP	0.9645	0.807
52DAP/51DAP	0.9535	1
53DAP/52DAP	1.10164	0.623
55DAP/53DAP	1.03827	0.904
57DAP/55DAP	0.9701	0.855
62DAP/57DAP	1.64381	0.622
68DAP/62DAP	1.05206	1
68DAP/14DAP	0.50988	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.71361	0.031

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.09585	0.898
Immature Eggplant/Mature Eggplant	1.92308	0.053
Ripe Pepper/Ripe Tomato	0.71792
Mature Eggplant/Ripe Tomato	1.31766	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.05161	0.877
1-1-2/M82	0.89974	1
12-2/M82	1.29238	1
12-4/M82	0.97333	1
1-3/M82	0.81866	0.441
2-1-1/M82	0.93388	1
2-1/M82	1.19714	0.335
2-6/M82	1.08157	0.695
3-2/M82	1.114
4-1-1/M82	0.89744	1
4-1/M82	1.03598	1
4-3-2/M82	0.66861	0.487
4-3/M82	0.91074	1
5-3/M82	0.98871	1
6-2/M82	0.86618	0.481
6-3/M82	1.04102	1
7-1/M82	0.98446	1
7-2/M82	0.9823	1
9-3-2/M82	0.76861	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.9988	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.29166
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.01383	1
IL1-4/WTpooled	1.07378	1
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	0.93274	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02451	0.921
DC3000/delta hrp 6h	1.01177	1
DC3000/delta hrp 12h	1.23883	1
DC3000/delta hrp 24h	0.99738	1

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	0.96713	0.936

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	1.20152	1
Exp 60h	0.98594	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01101	1
Var 0h	0.99746	1
Var 12h I row2-row1	1.18047	0.215
Var 12h NI row2-row1	0.86005	0.466
Var 36h I row2-row1	0.83349	0.34
Var 36h NI row2-row1	0.90474	0.706
Var 60h I row2-row1	1.69306	0.562
Var 60h NI row2-row1	1.27844	0.904
Time course 0hI-0hNI	1.14115	0.486
Time course 12hI-12hNI	1.05284	0.647
Time course 36hI-36hNI	0.93793	0.19
Time course 60hI-60hNI	0.95934	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)	0.96016	0.722
transgenic ySAMdc/azygous control (breaker)	1.31227	1
transgenic ySAMdc/azygous control (red)	1.02367	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04259	0.185

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.38929	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.77066	0.172
Manapal/WT (break)	1.16653	1
Manapal/WT (red)	0.76176	0.181