Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.1.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95041	0.671
27DAP/17DAP	1.16484	0.866
39DAP/27DAP	1.03663	0.857
41DAP/39DAP	1.34037	0.203
42DAP/41DAP	1.06713	1
43DAP/42DAP	0.99623	0.937
47DAP/43DAP	0.88656	0.618
52DAP/47DAP	1.19204	0.665
57DAP/52DAP	0.8168	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94765	0.159
17DAP/reference	1.01857	0.74
27DAP/reference	0.9806	0.654
39DAP/reference	0.94872	0.194
41DAP/reference	0.9832	0.814
42DAP/reference	0.95881	0.151
43DAP/reference	1.03982	0.596
47DAP/reference	0.91671	0.021
52DAP/reference	0.92089	0.258
57DAP/reference	0.8233	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01813	1
27DAP/17DAP	1.32232
39DAP/27DAP	1.08624	0.534
41DAP/39DAP	0.99505	1
42DAP/41DAP	1.057	0.893
43DAP/42DAP	1.06874	0.478
47DAP/43DAP	1.041	0.897
52DAP/47DAP	0.9987	0.969
57DAP/52DAP	1.04534	0.686
57DAP/7DAP	1.12373	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88239	0.08
17DAP/reference	0.91973	0.031
27DAP/reference	0.90525	0.022
39DAP/reference	0.94316	0.056
41DAP/reference	0.96487	0.271
42DAP/reference	0.96113	0.222
43DAP/reference	0.8152	0.011
47DAP/reference	0.87852	0.101
52DAP/reference	0.89982	0.077
57DAP/reference	0.90219	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04853	0.36
17DAP/reference	1.03263	0.584
27DAP/reference	0.99781	0.735
39DAP/reference	0.92449	0.159
41DAP/reference	0.97689	0.412
42DAP/reference	0.85661	0.03
43DAP/reference	0.9861	0.657
47DAP/reference	0.922	0.075
52DAP/reference	1.07207	0.259
57DAP/reference	1.1336	0.135

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96649	0.169
17DAP/reference	0.96912	0.477
27DAP/reference	0.93224	0.051
39DAP/reference	0.92372	0.011
41DAP/reference	0.95084	0.264
42DAP/reference	0.91079	0.108
43DAP/reference	0.93345	0.197
47DAP/reference	0.92171	0.183
52DAP/reference	0.88479	0.256
57DAP/reference	0.70308	0.018

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.08089	0.878
26DAP/20DAP	1.14146
34DAP/26DAP	1.05911	1
51DAP/34DAP	0.95766	0.727
52DAP/51DAP	1.12249	0.094
53DAP/52DAP	1.0084	1
55DAP/53DAP	0.9773	0.796
57DAP/55DAP	1.07251	0.915
62DAP/57DAP	1.12496	0.868
68DAP/62DAP	1.08803	0.792
68DAP/14DAP	1.00879	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.21921	0.439

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.66151	0.182
Mature Green Tomato/Ripe Tomato	0.82494	0.086
Immature Eggplant/Mature Eggplant	1.01536	0.683
Ripe Pepper/Ripe Tomato	0.83444	0.293
Mature Eggplant/Ripe Tomato	0.94531	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02724	1
1-1-2/M82	0.98788	1
12-2/M82	1.14257	1
12-4/M82	0.92771	1
1-3/M82	0.83704
2-1-1/M82	1.03382	1
2-1/M82	1.26511
2-6/M82	1.01602	1
3-2/M82	1.06248
4-1-1/M82	0.89033	1
4-1/M82	1.05355	1
4-3-2/M82	0.92166	1
4-3/M82	0.98032	1
5-3/M82	0.96591	1
6-2/M82	1.08346	1
6-3/M82	1.03458	1
7-1/M82	N/A	N/A
7-2/M82	1.01133	1
9-3-2/M82	0.89484	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0192
IL2-6/WTpooled	1.05795
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.86274	0.418
IL12-4/WTpooled	1.06113	1
IL1-4/WTpooled	1.54306	1
WT/WTpooled	1.05533	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	1.24653	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00924	1
DC3000/delta hrp 6h	0.90671	0.95
DC3000/delta hrp 12h	1.20649	1
DC3000/delta hrp 24h	1.10139	0.264

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.99013	1
DC3000 delta B/DC3000 delta AB	1.06467	0.453

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05628	1
Exp 36h	0.97277	0.82
Exp 60h	1.06374	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97455	1
Var 0h	0.83352	1
Var 12h I row2-row1	1.05825	0.506
Var 12h NI row2-row1	1.13017	1
Var 36h I row2-row1	1.07167	1
Var 36h NI row2-row1	0.87012	0.584
Var 60h I row2-row1	0.98824
Var 60h NI row2-row1	1.14121	0.904
Time course 0hI-0hNI	1.06508	0.852
Time course 12hI-12hNI	1.0104	0.892
Time course 36hI-36hNI	0.91184	0.255
Time course 60hI-60hNI	1.29642	0.015

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)	0.97085	0.314
transgenic ySAMdc/azygous control (breaker)	0.90825	0.251
transgenic ySAMdc/azygous control (red)	0.99483	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02855	0.135

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11176	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.95381	1
Manapal/WT (break)	1.08185	1
Manapal/WT (red)	0.84034	0.199