Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.7.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02309	0.912
27DAP/17DAP	1.09636	0.873
39DAP/27DAP	1.26082	0.372
41DAP/39DAP	0.9151	0.627
42DAP/41DAP	1.0348	0.962
43DAP/42DAP	0.89995	0.597
47DAP/43DAP	0.89847	0.645
52DAP/47DAP	1.60095	0.249
57DAP/52DAP	1.12507	0.93

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98871	0.645
17DAP/reference	0.92756	0.06
27DAP/reference	0.94026	0.089
39DAP/reference	0.91734	0.09
41DAP/reference	0.92144	0.114
42DAP/reference	1.10005	0.032
43DAP/reference	0.97242	0.331
47DAP/reference	1.04941	0.161
52DAP/reference	1.12008	0.079
57DAP/reference	0.99223	0.671

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9652	0.732
27DAP/17DAP	1.10447	0.706
39DAP/27DAP	1.01702	0.77
41DAP/39DAP	0.99895	1
42DAP/41DAP	1.04872	0.593
43DAP/42DAP	0.97034	0.558
47DAP/43DAP	0.96334	0.734
52DAP/47DAP	0.95542	0.893
57DAP/52DAP	0.88824	0.346
57DAP/7DAP	1.07713

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01012	1
17DAP/reference	1.05523	0.162
27DAP/reference	1.09218	0.012
39DAP/reference	0.97927	0.264
41DAP/reference	1.03782	0.507
42DAP/reference	1.11823	0.021
43DAP/reference	1.07676	0.178
47DAP/reference	0.98112	0.504
52DAP/reference	1.00119	0.802
57DAP/reference	1.1477	0.076

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04202	0.712
17DAP/reference	1.20324	0.101
27DAP/reference	1.09397	0.48
39DAP/reference	1.10365	0.67
41DAP/reference	1.15127	0.142
42DAP/reference	1.08212	0.455
43DAP/reference	1.14383	0.047
47DAP/reference	1.01906	0.731
52DAP/reference	1.03862	0.702
57DAP/reference	0.95646	0.549

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00903	1
17DAP/reference	1.1395	0.518
27DAP/reference	1.03251	0.325
39DAP/reference	1.11051	0.254
41DAP/reference	1.11449	0.369
42DAP/reference	1.14882	0.189
43DAP/reference	1.09432	0.515
47DAP/reference	1.01795	0.994
52DAP/reference	1.07958	0.491
57DAP/reference	1.18229	0.233

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95074	1
26DAP/20DAP	0.87914	0.317
34DAP/26DAP	0.89879	0.753
51DAP/34DAP	0.99907	0.957
52DAP/51DAP	1.07598	0.651
53DAP/52DAP	N/A	N/A
55DAP/53DAP	1.16655
57DAP/55DAP	0.98473	0.921
62DAP/57DAP	0.98682	1
68DAP/62DAP	0.97309	0.863
68DAP/14DAP	0.97729	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.11061	0.264

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.33069	0.417
Mature Green Tomato/Ripe Tomato	1.31261	0.69
Immature Eggplant/Mature Eggplant	0.98907	1
Ripe Pepper/Ripe Tomato	0.25803	0.224
Mature Eggplant/Ripe Tomato	0.89065	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95721	0.944
1-1-2/M82	0.9688	1
12-2/M82	0.91882	0.955
12-4/M82	0.97952	1
1-3/M82	1.03758	1
2-1-1/M82	1.0516	1
2-1/M82	1.6309
2-6/M82	0.97485	1
3-2/M82	1.01686	1
4-1-1/M82	0.88973	1
4-1/M82	0.84672
4-3-2/M82	0.92991	1
4-3/M82	1.00456	1
5-3/M82	0.96224	1
6-2/M82	0.92673	1
6-3/M82	1.00405	1
7-1/M82	1.0211	1
7-2/M82	0.91902	0.881
9-3-2/M82	0.92298	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.12508	0.365
IL2-6/WTpooled	0.97943	1
IL7-5/WTpooled	0.8588	1
IL7-3/WTpooled	1.38429	1
IL12-4/WTpooled	0.97143	1
IL1-4/WTpooled	1.1357	1
WT/WTpooled	1.09821	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	0.87689	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97791	1
DC3000/delta hrp 6h	0.91297	0.95
DC3000/delta hrp 12h	0.96389	1
DC3000/delta hrp 24h	1.10387	0.347

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.98199	1
DC3000 delta B/DC3000 delta AB	1.00406	1

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
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	1.06046	1
Var 0h	1.03056	0.936
Var 12h I row2-row1	1.10783	0.283
Var 12h NI row2-row1	0.97861	0.906
Var 36h I row2-row1	1.3848	1
Var 36h NI row2-row1	0.9886	0.852
Var 60h I row2-row1	0.99472	1
Var 60h NI row2-row1	1.131	0.904
Time course 0hI-0hNI	1.0502	0.662
Time course 12hI-12hNI	0.99772	1
Time course 36hI-36hNI	0.99766	0.718
Time course 60hI-60hNI	0.93308	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)	1.03115	0.798
transgenic ySAMdc/azygous control (breaker)	0.71017	0.134
transgenic ySAMdc/azygous control (red)	1.03344	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95192	0.072

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.16482	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95883	1
Manapal/WT (break)	0.92168	1
Manapal/WT (red)	0.91736	0.188