Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.11.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0773	0.878
27DAP/17DAP	0.91297	0.787
39DAP/27DAP	1.3645	0.546
41DAP/39DAP	0.62148	0.068
42DAP/41DAP	1.3476	0.986
43DAP/42DAP	0.79707	0.409
47DAP/43DAP	0.87823	0.628
52DAP/47DAP	1.16858	0.654
57DAP/52DAP	0.78783	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03824	0.814
17DAP/reference	1.16375	0.08
27DAP/reference	0.93729	0.106
39DAP/reference	1.00152	0.855
41DAP/reference	1.02962	0.808
42DAP/reference	0.85838	0.041
43DAP/reference	0.99618	0.84
47DAP/reference	0.86568	0.042
52DAP/reference	0.81553	0.111
57DAP/reference	0.89652	0.124

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91822	0.56
27DAP/17DAP	1.01058	0.969
39DAP/27DAP	1.21699	0.46
41DAP/39DAP	1.20761	0.531
42DAP/41DAP	0.85226	0.3
43DAP/42DAP	1.04684	0.83
47DAP/43DAP	1.0398	0.906
52DAP/47DAP	0.94979	0.857
57DAP/52DAP	0.79081	0.211
57DAP/7DAP	0.68582	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93062	0.361
17DAP/reference	0.7961	0.011
27DAP/reference	0.82433	0.011
39DAP/reference	0.85396	0.016
41DAP/reference	0.83697	0.019
42DAP/reference	0.79302	0.011
43DAP/reference	0.79398	0.011
47DAP/reference	0.80347	0.066
52DAP/reference	0.75667	0.019
57DAP/reference	0.80555	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09145	0.732
17DAP/reference	0.9197	0.399
27DAP/reference	0.85618	0.167
39DAP/reference	0.73015	0.091
41DAP/reference	0.81696	0.169
42DAP/reference	0.86769	0.261
43DAP/reference	1.06095	0.899
47DAP/reference	1.35245	0.018
52DAP/reference	0.78022	0.055
57DAP/reference	1.0731	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82479	0.063
17DAP/reference	1.00076	0.839
27DAP/reference	0.91583	0.286
39DAP/reference	0.82975	0.029
41DAP/reference	0.88093	0.185
42DAP/reference	0.8647	0.287
43DAP/reference	0.75323	0.027
47DAP/reference	0.75408	0.024
52DAP/reference	0.79122	0.155
57DAP/reference	0.69578	0.031

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.0706	0.966
26DAP/20DAP	0.80631	1
34DAP/26DAP	1.14468	1
51DAP/34DAP	1.36042	0.55
52DAP/51DAP	1.02464	1
53DAP/52DAP	1.17195	0.845
55DAP/53DAP	1.01694	0.864
57DAP/55DAP	0.74828	0.297
62DAP/57DAP	1.09994	1
68DAP/62DAP	1.04543	0.944
68DAP/14DAP	0.79381	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.89519	0.358

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.14641
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.20853
Mature Eggplant/Ripe Tomato	0.36979	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.96594
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.3825
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.07774

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.86788	1
IL2-6/WTpooled	1.04608	1
IL7-5/WTpooled	0.91868	1
IL7-3/WTpooled	1.03772	1
IL12-4/WTpooled	1.10903	0.695
IL1-4/WTpooled	0.94294	1
WT/WTpooled	1.02491	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	1.07764	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08311	0.692
DC3000/delta hrp 6h	0.98015	0.95
DC3000/delta hrp 12h	1.47674	1
DC3000/delta hrp 24h	1.28257	0.182

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	1.05909

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.94971	1
Exp 36h	1.1743	0.693
Exp 60h	0.73733	0.454

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01794	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.03687	0.795
Var 12h NI row2-row1	1.23633	1
Var 36h I row2-row1	1.52949	0.601
Var 36h NI row2-row1	1.06286	0.482
Var 60h I row2-row1	0.92188	0.832
Var 60h NI row2-row1	0.86928	0.818
Time course 0hI-0hNI	1.004	1
Time course 12hI-12hNI	1.70508	0.004
Time course 36hI-36hNI	1.4835	0.006
Time course 60hI-60hNI	1.69374	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)	1.25937	0.699
transgenic ySAMdc/azygous control (breaker)	0.48194	0.142
transgenic ySAMdc/azygous control (red)	1.2614	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96676	0.186

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.66865	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.63927	0.096
Manapal/WT (break)	1.45223	0.381
Manapal/WT (red)	0.88159	0.607