Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.6.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02521	0.964
27DAP/17DAP	1.07069	0.885
39DAP/27DAP	0.82224	0.392
41DAP/39DAP	1.46442	0.181
42DAP/41DAP	1.00831	1
43DAP/42DAP	1.10778	1
47DAP/43DAP	1.07301	0.842
52DAP/47DAP	1.08266	0.902
57DAP/52DAP	1.08913	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92972	0.317
17DAP/reference	0.97298	0.342
27DAP/reference	0.96076	0.654
39DAP/reference	0.72425	0.455
41DAP/reference	1.11589	0.552
42DAP/reference	0.87536	0.02
43DAP/reference	N/A	N/A
47DAP/reference	0.9704	0.366
52DAP/reference	0.92366	0.35
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95717	0.454
27DAP/17DAP	1.00164	1
39DAP/27DAP	0.99685	1
41DAP/39DAP	0.9754	0.98
42DAP/41DAP	1.03941	0.947
43DAP/42DAP	1.07717	0.134
47DAP/43DAP	1.04949	0.837
52DAP/47DAP	0.96536	0.739
57DAP/52DAP	0.95659	0.581
57DAP/7DAP	0.98324	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.52162	0.061
17DAP/reference	1.60094	0.008
27DAP/reference	1.89233	0.01
39DAP/reference	2.57186	0.008
41DAP/reference	1.72289	0.06
42DAP/reference	1.78731	0.007
43DAP/reference	1.8897	0.01
47DAP/reference	1.6426	0.421
52DAP/reference	2.3123	0.008
57DAP/reference	2.11102	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01559	0.812
17DAP/reference	1.0104	0.979
27DAP/reference	0.85335	0.119
39DAP/reference	0.96612	0.455
41DAP/reference	0.94464	0.299
42DAP/reference	0.939	0.212
43DAP/reference	1.08888	0.899
47DAP/reference	0.97457	0.434
52DAP/reference	0.94944	0.259
57DAP/reference	0.99276	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10214	0.303
17DAP/reference	1.09619	0.912
27DAP/reference	1.49455	0.033
39DAP/reference	1.75023	0.012
41DAP/reference	1.54264	0.041
42DAP/reference	0.96382	0.671
43DAP/reference	1.58394	0.051
47DAP/reference	0.94624	0.357
52DAP/reference	1.0148	0.99
57DAP/reference	0.79867	0.089

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06614	0.966
26DAP/20DAP	1.00175	1
34DAP/26DAP	1.01552	1
51DAP/34DAP	1.11895	0.524
52DAP/51DAP	0.99383	1
53DAP/52DAP	1.02998	0.882
55DAP/53DAP	0.98396	0.852
57DAP/55DAP	1.16274	0.114
62DAP/57DAP	N/A	N/A
68DAP/62DAP	0.95125	0.609
68DAP/14DAP	0.84287	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.8963	0.115

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.81601	0.323
Mature Green Tomato/Ripe Tomato	1.0901	0.814
Immature Eggplant/Mature Eggplant	0.72173	0.063
Ripe Pepper/Ripe Tomato	24.3369	1
Mature Eggplant/Ripe Tomato	7.50651	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0386	1
1-1-2/M82	0.99485	1
12-2/M82	1.02158	1
12-4/M82	0.91453	1
1-3/M82	0.94036	1
2-1-1/M82	1.06061	0.764
2-1/M82	1.2579	0.345
2-6/M82	0.97381	1
3-2/M82	0.74686
4-1-1/M82	0.98639	1
4-1/M82	0.96802	1
4-3-2/M82	0.85682	0.698
4-3/M82	0.94042	1
5-3/M82	0.98148	1
6-2/M82	1.0815	1
6-3/M82	0.92639	1
7-1/M82	1.03338	1
7-2/M82	1.03445	1
9-3-2/M82	0.82831	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.6842	0.247
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.69284	0.792
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.56095	0.581
IL1-4/WTpooled	1.14004	1
WT/WTpooled	0.95854

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	0.98545	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94112	1
DC3000/delta hrp 6h	1.13598	1
DC3000/delta hrp 12h	1.06112	1
DC3000/delta hrp 24h	1.13649	0.411

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.96696	0.955
DC3000 delta B/DC3000 delta AB	1.03741	0.535

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.74177	1
Exp 36h	1.25764	1
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	0.96758	1
Var 0h	0.86806	0.933
Var 12h I row2-row1	1.13104	0.189
Var 12h NI row2-row1	1.01389	1
Var 36h I row2-row1	0.96998	1
Var 36h NI row2-row1	1.05177	0.482
Var 60h I row2-row1	1.10894	1
Var 60h NI row2-row1	1.1207	0.904
Time course 0hI-0hNI	1.05833	0.852
Time course 12hI-12hNI	1.01052	0.876
Time course 36hI-36hNI	0.92255	0.148
Time course 60hI-60hNI	1.07064	0.08

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)	0.93386	0.485
transgenic ySAMdc/azygous control (breaker)	0.82336	0.173
transgenic ySAMdc/azygous control (red)	1.05454	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9743	0.486

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.76603	1
Manapal/WT (break)	0.96598	1
Manapal/WT (red)	0.81765	0.216