Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.18.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00865	0.811
27DAP/17DAP	1.19974	0.845
39DAP/27DAP	1.45915	0.782
41DAP/39DAP	0.98902	0.857
42DAP/41DAP	1.08374	1
43DAP/42DAP	0.96547	0.925
47DAP/43DAP	1.12308	0.769
52DAP/47DAP	0.96819	0.903
57DAP/52DAP	0.95987	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76415	0.041
17DAP/reference	1.11494	0.166
27DAP/reference	0.96152	0.484
39DAP/reference	1.03495	0.691
41DAP/reference	1.027	1
42DAP/reference	0.87918	0.041
43DAP/reference	0.9622	0.576
47DAP/reference	0.90902	0.03
52DAP/reference	0.80432	0.093
57DAP/reference	0.94248	0.262

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20691	0.406
27DAP/17DAP	2.03644	0.235
39DAP/27DAP	1.10105	1
41DAP/39DAP	0.84775	0.839
42DAP/41DAP	1.49201	0.514
43DAP/42DAP	0.66094	0.137
47DAP/43DAP	1.05487	1
52DAP/47DAP	1.05557	1
57DAP/52DAP	1.08713	0.881
57DAP/7DAP	1.07709	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76414	0.168
17DAP/reference	0.82046	0.167
27DAP/reference	0.82376	0.171
39DAP/reference	0.92611	0.307
41DAP/reference	0.84735	0.098
42DAP/reference	0.9018	0.304
43DAP/reference	0.79745	0.192
47DAP/reference	0.95884	0.504
52DAP/reference	0.96666	0.435
57DAP/reference	1.07239	0.907

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99097	0.848
17DAP/reference	0.97199	0.548
27DAP/reference	0.59153	0.031
39DAP/reference	0.74103	0.025
41DAP/reference	0.83448	0.133
42DAP/reference	0.77397	0.046
43DAP/reference	1.01031	0.863
47DAP/reference	0.86308	0.054
52DAP/reference	0.88613	0.131
57DAP/reference	1.11257	0.626

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82564	0.23
17DAP/reference	0.80162	0.009
27DAP/reference	0.84683	0.243
39DAP/reference	1.08816	0.885
41DAP/reference	0.96874	0.682
42DAP/reference	0.99033	0.816
43DAP/reference	0.85169	0.246
47DAP/reference	0.99706	0.61
52DAP/reference	0.93624	0.482
57DAP/reference	0.62335	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01652	1
26DAP/20DAP	1.4038
34DAP/26DAP	1.10413	0.97
51DAP/34DAP	18.1544	0.021
52DAP/51DAP	0.43711	0.067
53DAP/52DAP	6.33497	0.016
55DAP/53DAP	0.71938	0.055
57DAP/55DAP	0.71376	0.08
62DAP/57DAP	0.35848	0.003
68DAP/62DAP	1.07249	0.926
68DAP/14DAP	2.87704	0.022

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.21901	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.02905	0.036
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	47.4675	0.256
Mature Eggplant/Ripe Tomato	0.18256	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.69282
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.85891	0.619
1-3/M82	N/A	N/A
2-1-1/M82	1.01864
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
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	0.73536	0.642
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.11922
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97783	0.243
IL2-6/WTpooled	0.62206	0.473
IL7-5/WTpooled	0.82304	1
IL7-3/WTpooled	1.33065	0.362
IL12-4/WTpooled	1.0899	0.785
IL1-4/WTpooled	1.00219	1
WT/WTpooled	0.99473	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	1.61806	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87018	0.868
DC3000/delta hrp 6h	0.92689	0.95
DC3000/delta hrp 12h	1.07951	1
DC3000/delta hrp 24h	0.84237	0.346

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	N/A	N/A

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	0.96075
Var 0h	1.0124	0.98
Var 12h I row2-row1	0.82479
Var 12h NI row2-row1	1.08633
Var 36h I row2-row1	0.87979
Var 36h NI row2-row1	1.3541
Var 60h I row2-row1	0.75234	0.832
Var 60h NI row2-row1	1.03496	1
Time course 0hI-0hNI	1.10522	1
Time course 12hI-12hNI	1.28209	0.741
Time course 36hI-36hNI	0.7334	0.084
Time course 60hI-60hNI	2.97199	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	1.25021	1
transgenic ySAMdc/azygous control (red)	1.23629	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.14362	0.04

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11954	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.10661	1
Manapal/WT (red)	0.96874	0.863