Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.11.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.28563	0.801
27DAP/17DAP	1.13212	0.854
39DAP/27DAP	0.77629	0.449
41DAP/39DAP	1.19474	0.904
42DAP/41DAP	1.10278	1
43DAP/42DAP	0.88914	0.827
47DAP/43DAP	0.94475	0.773
52DAP/47DAP	1.41546	0.401
57DAP/52DAP	0.84703	0.857

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31367	0.025
17DAP/reference	1.2002	0.032
27DAP/reference	1.08838	0.246
39DAP/reference	1.10332	0.352
41DAP/reference	1.16787	0.067
42DAP/reference	1.02947	1
43DAP/reference	1.02576	0.838
47DAP/reference	0.86955	0.009
52DAP/reference	0.84557	0.086
57DAP/reference	0.86179	0.056

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86824	0.158
27DAP/17DAP	1.01095	0.969
39DAP/27DAP	1.07111	0.514
41DAP/39DAP	1.03591	0.895
42DAP/41DAP	1.00541	0.924
43DAP/42DAP	1.03208	1
47DAP/43DAP	1.06222	0.812
52DAP/47DAP	0.9369	0.719
57DAP/52DAP	0.99014	0.833
57DAP/7DAP	1.22502	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80057	0.138
17DAP/reference	0.99974	0.693
27DAP/reference	1.03671	0.551
39DAP/reference	1.11488	0.198
41DAP/reference	1.01294	0.709
42DAP/reference	1.41585	0.007
43DAP/reference	1.61561	0.01
47DAP/reference	1.04014	1
52DAP/reference	1.1056	0.941
57DAP/reference	1.36325	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.2559	0.238
17DAP/reference	1.39534	0.032
27DAP/reference	1.03025	0.948
39DAP/reference	0.93116	0.221
41DAP/reference	1.01043	0.718
42DAP/reference	0.99734	0.723
43DAP/reference	1.7373	0.011
47DAP/reference	1.08708	0.197
52DAP/reference	1.0526	0.789
57DAP/reference	1.25778	0.045

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93643	0.362
17DAP/reference	1.38778	0.203
27DAP/reference	1.94831	0.022
39DAP/reference	1.93098	0.006
41DAP/reference	1.32794	0.205
42DAP/reference	1.36741	0.142
43DAP/reference	0.91395	0.171
47DAP/reference	1.12532	0.081
52DAP/reference	2.93835	0.123
57DAP/reference	0.92217	0.258

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.17776	0.916
26DAP/20DAP	1.12409	0.7
34DAP/26DAP	1.02604	1
51DAP/34DAP	0.82413	0.152
52DAP/51DAP	0.85129	0.151
53DAP/52DAP	0.91366	0.386
55DAP/53DAP	0.95348	0.698
57DAP/55DAP	1.43283	0.176
62DAP/57DAP	0.85938	0.28
68DAP/62DAP	0.86335	0.406
68DAP/14DAP	1.07793	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.91861	0.224

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.31149	0.149
Immature Eggplant/Mature Eggplant	0.75416
Ripe Pepper/Ripe Tomato	0.20033	0.224
Mature Eggplant/Ripe Tomato	0.15734	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.14508	0.877
1-1-2/M82	0.98324	1
12-2/M82	1.43505	0.61
12-4/M82	0.98437	1
1-3/M82	0.92805	1
2-1-1/M82	0.97974	1
2-1/M82	0.89553
2-6/M82	1.17287	1
3-2/M82	0.99533
4-1-1/M82	1.05436	1
4-1/M82	1.1359
4-3-2/M82	1.09204	0.262
4-3/M82	1.27512	0.268
5-3/M82	1.06526	0.426
6-2/M82	0.98827
6-3/M82	N/A	N/A
7-1/M82	0.96869	1
7-2/M82	0.52028	0.578
9-3-2/M82	0.83303	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.1082
IL2-6/WTpooled	1.15789
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.9293	1
IL12-4/WTpooled	0.92451	0.71
IL1-4/WTpooled	0.91628	0.699
WT/WTpooled	1.06813	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	0.98917	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.08332	0.914
DC3000/delta hrp 6h	0.96591
DC3000/delta hrp 12h	0.99222	1
DC3000/delta hrp 24h	0.9323	0.543

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.19037	0.073
DC3000 delta B/DC3000 delta AB	1.11046	0.381

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	0.99594	1
Var 0h	1.50295	1
Var 12h I row2-row1	1.0329	1
Var 12h NI row2-row1	1.0175	1
Var 36h I row2-row1	1.03125	1
Var 36h NI row2-row1	0.93744	0.645
Var 60h I row2-row1	0.97199	0.832
Var 60h NI row2-row1	1.06758	0.904
Time course 0hI-0hNI	1.03228	0.852
Time course 12hI-12hNI	0.95795	0.506
Time course 36hI-36hNI	1.12603	0.016
Time course 60hI-60hNI	1.28998	0.011

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)	1.61906	0.326
transgenic ySAMdc/azygous control (breaker)	0.50171	0.132
transgenic ySAMdc/azygous control (red)	1.11849	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01678	0.619

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.38547	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95655	1
Manapal/WT (break)	0.70232	1
Manapal/WT (red)	0.42118	0.181