Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.16.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.87936	0.456
27DAP/17DAP	1.27854	0.785
39DAP/27DAP	1.11166	0.903
41DAP/39DAP	1.24285	0.217
42DAP/41DAP	1.09435	0.931
43DAP/42DAP	0.81224	0.551
47DAP/43DAP	0.88133	0.613
52DAP/47DAP	1.45976	0.525
57DAP/52DAP	0.86028	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.092	0.241
17DAP/reference	1.01396	0.717
27DAP/reference	0.96478	0.141
39DAP/reference	1.00009	1
41DAP/reference	1.11826	0.034
42DAP/reference	1.04847	0.174
43DAP/reference	0.99347	0.84
47DAP/reference	0.93696	0.013
52DAP/reference	0.99211	0.636
57DAP/reference	0.8804	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82076	0.093
27DAP/17DAP	1.00865	0.969
39DAP/27DAP	1.13108	0.499
41DAP/39DAP	1.63145	0.238
42DAP/41DAP	0.81403	0.062
43DAP/42DAP	0.98673	0.875
47DAP/43DAP	0.96165	0.833
52DAP/47DAP	1.09401	0.681
57DAP/52DAP	1.0855	0.846
57DAP/7DAP	0.90243	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95493	0.091
17DAP/reference	0.99221	0.447
27DAP/reference	0.91271	0.066
39DAP/reference	0.98334	0.354
41DAP/reference	0.99075	0.565
42DAP/reference	1.02536	0.534
43DAP/reference	1.06884	0.188
47DAP/reference	1.14646	0.161
52DAP/reference	0.96185	0.196
57DAP/reference	1.01087	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07115	0.249
17DAP/reference	1.05163	0.628
27DAP/reference	0.97904	0.438
39DAP/reference	1.17025	0.028
41DAP/reference	1.10768	0.353
42DAP/reference	1.1445	0.144
43DAP/reference	1.12474	0.308
47DAP/reference	1.01871	0.544
52DAP/reference	1.1368	0.017
57DAP/reference	1.19841	0.058

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20138	0.386
17DAP/reference	1.05458	0.675
27DAP/reference	0.98911	0.594
39DAP/reference	0.91464	0.092
41DAP/reference	0.95728	0.264
42DAP/reference	0.92667	0.108
43DAP/reference	0.90929	0.116
47DAP/reference	1.03469	0.655
52DAP/reference	0.89668	0.223
57DAP/reference	0.77502	0.033

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.8756	0.841
26DAP/20DAP	0.88952	1
34DAP/26DAP	0.85168	0.596
51DAP/34DAP	0.84888	0.24
52DAP/51DAP	1.09189	0.676
53DAP/52DAP	1.08202	0.723
55DAP/53DAP	1.13185	0.511
57DAP/55DAP	1.08254	0.906
62DAP/57DAP	1.17535	0.868
68DAP/62DAP	0.90659	0.722
68DAP/14DAP	0.83878	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.45913	0.369

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.63775	0.06
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.14872	0.224
Mature Eggplant/Ripe Tomato	0.13444	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.82953	0.907
1-1-2/M82	0.91907	0.804
12-2/M82	1.01955	1
12-4/M82	1.04387	1
1-3/M82	0.76231	0.378
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.03453	1
3-2/M82	0.88006
4-1-1/M82	0.90805	1
4-1/M82	1.08476
4-3-2/M82	0.70871	0.487
4-3/M82	N/A	N/A
5-3/M82	1.02992	1
6-2/M82	N/A	N/A
6-3/M82	1.12166	1
7-1/M82	1.28526
7-2/M82	0.93748	0.881
9-3-2/M82	0.88166	1

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	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.80338
IL1-4/WTpooled	N/A	N/A
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	2.58571	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92735	1
DC3000/delta hrp 6h	0.70201
DC3000/delta hrp 12h	1.06099	1
DC3000/delta hrp 24h	1.23568	0.158

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	0.89149	0.418

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.33015	1
Exp 36h	1.60234	0.371
Exp 60h	1.87431	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.952	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.08408	0.406
Var 12h NI row2-row1	0.89552	0.713
Var 36h I row2-row1	1.00065	1
Var 36h NI row2-row1	1.04391	1
Var 60h I row2-row1	1.12405	0.562
Var 60h NI row2-row1	1.244	0.904
Time course 0hI-0hNI	1.10276	0.764
Time course 12hI-12hNI	1.14359	0.115
Time course 36hI-36hNI	1.39866	0.013
Time course 60hI-60hNI	1.42717	0.008

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)	1.62055	0.212
transgenic ySAMdc/azygous control (breaker)	0.2167	0.119
transgenic ySAMdc/azygous control (red)	1.44191	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99594	0.832

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.80326	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98664	1
Manapal/WT (break)	0.75546	1
Manapal/WT (red)	0.51279	0.503