Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.15.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09021	0.545
27DAP/17DAP	1.6496	0.467
39DAP/27DAP	0.96657	0.7
41DAP/39DAP	1.31311	0.249
42DAP/41DAP	0.98988	1
43DAP/42DAP	0.93734	0.801
47DAP/43DAP	0.96014	0.821
52DAP/47DAP	0.88613	0.675
57DAP/52DAP	1.00467	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95134	0.293
17DAP/reference	1.04808	0.127
27DAP/reference	1.04864	0.339
39DAP/reference	1.05133	0.091
41DAP/reference	1.02118	0.91
42DAP/reference	1.07401	0.098
43DAP/reference	1.00447	1
47DAP/reference	1.00763	0.989
52DAP/reference	1.00224	0.768
57DAP/reference	0.97961	0.479

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91853	0.363
27DAP/17DAP	1.02253	0.923
39DAP/27DAP	1.00585	0.862
41DAP/39DAP	1.03341	0.837
42DAP/41DAP	0.96925	0.746
43DAP/42DAP	1.00845	0.513
47DAP/43DAP	1.04677	0.724
52DAP/47DAP	1.02657	0.907
57DAP/52DAP	0.96624	0.685
57DAP/7DAP	0.96563	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95823	0.224
17DAP/reference	0.95457	0.192
27DAP/reference	0.99365	0.614
39DAP/reference	1.03258	0.538
41DAP/reference	0.83711	0.02
42DAP/reference	0.898	0.018
43DAP/reference	0.97867	0.459
47DAP/reference	0.84455	0.05
52DAP/reference	1.06128	0.599
57DAP/reference	1.1065	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96946	0.532
17DAP/reference	1.00615	1
27DAP/reference	0.88828	0.123
39DAP/reference	0.94656	0.392
41DAP/reference	0.95689	0.242
42DAP/reference	1.03842	0.68
43DAP/reference	0.88025	0.08
47DAP/reference	1.08255	0.143
52DAP/reference	0.99067	0.537
57DAP/reference	0.99527	0.789

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21004	0.024
17DAP/reference	1.0469	0.706
27DAP/reference	1.18039	0.035
39DAP/reference	1.11328	0.013
41DAP/reference	0.97566	0.512
42DAP/reference	1.00439	0.816
43DAP/reference	1.02256	0.935
47DAP/reference	0.9825	0.558
52DAP/reference	1.0381	0.77
57DAP/reference	0.89103	0.221

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02154	0.966
26DAP/20DAP	0.95315	0.512
34DAP/26DAP	0.96889	0.879
51DAP/34DAP	1.03955	0.869
52DAP/51DAP	0.96847	1
53DAP/52DAP	0.95033	0.695
55DAP/53DAP	0.96212	0.775
57DAP/55DAP	1.3101	0.643
62DAP/57DAP	1.03755	0.902
68DAP/62DAP	1.10031	0.737
68DAP/14DAP	1.04054	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9209	0.186

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.97276	0.658
Mature Green Tomato/Ripe Tomato	1.84017	0.077
Immature Eggplant/Mature Eggplant	1.64707	0.05
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	11.7297	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.98223	0.961
1-1-2/M82	0.93899	0.804
12-2/M82	1.25162	1
12-4/M82	0.97816	0.33
1-3/M82	0.9182	0.501
2-1-1/M82	1.15935	0.764
2-1/M82	1.21121	1
2-6/M82	0.98509	1
3-2/M82	1.03031
4-1-1/M82	0.93427	1
4-1/M82	1.11834
4-3-2/M82	0.98456
4-3/M82	1.01777	1
5-3/M82	0.98086	1
6-2/M82	1.00215	1
6-3/M82	0.96818	1
7-1/M82	0.95302	1
7-2/M82	1.07445	1
9-3-2/M82	N/A	N/A

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	1.52073
IL12-4/WTpooled	0.98501	1
IL1-4/WTpooled	1.03482	1
WT/WTpooled	1.02757	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	1.14312	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05072	0.921
DC3000/delta hrp 6h	1.19687	1
DC3000/delta hrp 12h	1.02832	1
DC3000/delta hrp 24h	0.91117	0.236

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14711	0.045
DC3000 delta B/DC3000 delta AB	1.11882	0.336

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01036	1
Exp 36h	1.2024	1
Exp 60h	1.12226	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00034	1
Var 0h	0.50014	1
Var 12h I row2-row1	1.05774	0.795
Var 12h NI row2-row1	0.81418	0.546
Var 36h I row2-row1	1.31366	1
Var 36h NI row2-row1	1.06672	1
Var 60h I row2-row1	1.7529	1
Var 60h NI row2-row1	1.10591	0.904
Time course 0hI-0hNI	1.09453	0.63
Time course 12hI-12hNI	0.9624	0.701
Time course 36hI-36hNI	0.88236	0.106
Time course 60hI-60hNI	1.08527	0.302

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)	1.2787	0.541
transgenic ySAMdc/azygous control (breaker)	1.48358	1
transgenic ySAMdc/azygous control (red)	1.18698	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99099	0.534

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.75715	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.61866	0.14
Manapal/WT (break)	0.87998	1
Manapal/WT (red)	1.21781	0.413