Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.10.11

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88109	0.503
27DAP/17DAP	0.79282	0.487
39DAP/27DAP	1.19085	0.635
41DAP/39DAP	0.81546	0.27
42DAP/41DAP	1.01854	1
43DAP/42DAP	0.95322	0.892
47DAP/43DAP	1.32685	0.542
52DAP/47DAP	1.03417	0.886
57DAP/52DAP	0.97881	0.971

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13307	0.154
17DAP/reference	1.03655	0.74
27DAP/reference	1.04057	0.623
39DAP/reference	0.90527	0.121
41DAP/reference	0.89045	0.114
42DAP/reference	1.03213	1
43DAP/reference	1.03233	0.866
47DAP/reference	1.28205	0.009
52DAP/reference	1.01724	0.991
57DAP/reference	1.15465	0.249

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.84198	0.323
27DAP/17DAP	1.4961	0.067
39DAP/27DAP	1.16511	0.337
41DAP/39DAP	1.05597	1
42DAP/41DAP	1.04755	0.675
43DAP/42DAP	1.16351	0.134
47DAP/43DAP	0.97668	0.909
52DAP/47DAP	0.87988	0.778
57DAP/52DAP	1.06074	1
57DAP/7DAP	0.82809	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21727	0.087
17DAP/reference	0.95544	0.094
27DAP/reference	1.10183	0.453
39DAP/reference	1.27307	0.126
41DAP/reference	1.16208	0.191
42DAP/reference	1.18004	0.021
43DAP/reference	1.26921	0.007
47DAP/reference	1.29703	0.133
52DAP/reference	1.13876	0.012
57DAP/reference	1.14769	0.108

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.15622	0.254
17DAP/reference	1.22375	0.21
27DAP/reference	1.23003	0.153
39DAP/reference	1.15448	0.08
41DAP/reference	1.09027	0.944
42DAP/reference	1.21316	0.061
43DAP/reference	0.99524	0.692
47DAP/reference	1.17101	0.247
52DAP/reference	0.89552	0.171
57DAP/reference	0.90646	0.278

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14108	0.103
17DAP/reference	1.04948	0.657
27DAP/reference	1.00962	1
39DAP/reference	1.01143	0.987
41DAP/reference	1.08163	0.265
42DAP/reference	1.02918	0.923
43DAP/reference	1.11876	0.369
47DAP/reference	1.12681	0.239
52DAP/reference	1.05727	0.876
57DAP/reference	1.01393	0.742

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14961	1
26DAP/20DAP	1.61885	0.109
34DAP/26DAP	0.889	0.861
51DAP/34DAP	1.0693	0.775
52DAP/51DAP	0.84433	0.151
53DAP/52DAP	0.93284	0.776
55DAP/53DAP	0.67852	0.062
57DAP/55DAP	1.33728	0.376
62DAP/57DAP	1.2602	0.393
68DAP/62DAP	0.8301	0.464
68DAP/14DAP	1.06787	0.958

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.29124	0.122

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.36909	0.058
Mature Green Tomato/Ripe Tomato	0.99132	0.715
Immature Eggplant/Mature Eggplant	0.85246	0.069
Ripe Pepper/Ripe Tomato	1.16997	0.258
Mature Eggplant/Ripe Tomato	0.98198	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0273	1
1-1-2/M82	1.03363	1
12-2/M82	0.83481
12-4/M82	0.90779	1
1-3/M82	1.68332	0.277
2-1-1/M82	1.01752	1
2-1/M82	0.88358	0.74
2-6/M82	0.84429	1
3-2/M82	0.96183	1
4-1-1/M82	1.02945	1
4-1/M82	2.27326
4-3-2/M82	1.30172	0.246
4-3/M82	0.99424	1
5-3/M82	1.08893	1
6-2/M82	1.01542
6-3/M82	0.95774	1
7-1/M82	1.23808	0.598
7-2/M82	1.20965	0.324
9-3-2/M82	1.1331	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.43368
IL2-6/WTpooled	0.7455	0.473
IL7-5/WTpooled	0.10915
IL7-3/WTpooled	0.99308	1
IL12-4/WTpooled	0.71823	0.566
IL1-4/WTpooled	1.13308	0.426
WT/WTpooled	0.93988	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	0.98456	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.87433	0.941
DC3000/delta hrp 6h	1.03069	0.95
DC3000/delta hrp 12h	0.99259	1
DC3000/delta hrp 24h	1.07644	0.411

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.6767
DC3000 delta B/DC3000 delta AB	1.23982

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92153	1
Exp 36h	0.90656	0.879
Exp 60h	0.86783	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99564	1
Var 0h	0.96665	1
Var 12h I row2-row1	0.95197	0.856
Var 12h NI row2-row1	0.92661	0.82
Var 36h I row2-row1	1.01318	1
Var 36h NI row2-row1	1.219	1
Var 60h I row2-row1	0.96163	0.832
Var 60h NI row2-row1	0.87192	0.69
Time course 0hI-0hNI	1.01929	0.852
Time course 12hI-12hNI	0.97095	0.739
Time course 36hI-36hNI	1.03308	0.28
Time course 60hI-60hNI	1.01657	0.495

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)	1.06123	0.541
transgenic ySAMdc/azygous control (breaker)	1.36442	0.162
transgenic ySAMdc/azygous control (red)	0.89746	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.08878	0.042

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.5717	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.01754	1
Manapal/WT (break)	0.96455	1
Manapal/WT (red)	1.33206	0.164