Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.12.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.24654	0.498
27DAP/17DAP	0.64369	0.097
39DAP/27DAP	0.83844	0.529
41DAP/39DAP	0.83902	0.403
42DAP/41DAP	0.976	1
43DAP/42DAP	1.11328	0.968
47DAP/43DAP	1.05855	0.776
52DAP/47DAP	0.7449	0.335
57DAP/52DAP	1.19901	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00219	0.589
17DAP/reference	0.5738	0.008
27DAP/reference	0.57469	0.013
39DAP/reference	0.49847	0.014
41DAP/reference	0.39467	0.008
42DAP/reference	0.44211	0.001
43DAP/reference	0.25929	0.012
47DAP/reference	0.27268	0.001
52DAP/reference	0.26996	0.01
57DAP/reference	0.261	0.007

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.39922	0.129
27DAP/17DAP	0.80574	0.259
39DAP/27DAP	0.63961	0.032
41DAP/39DAP	1.03869	0.735
42DAP/41DAP	0.96626	0.737
43DAP/42DAP	1.02846	0.513
47DAP/43DAP	0.95436	0.637
52DAP/47DAP	1.0348	0.844
57DAP/52DAP	1.00114	0.897
57DAP/7DAP	0.79262	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06464	0.613
17DAP/reference	0.75162	0.011
27DAP/reference	0.48857	0.01
39DAP/reference	0.42921	0.011
41DAP/reference	0.27123	0.009
42DAP/reference	0.26662	0.01
43DAP/reference	0.25073	0.008
47DAP/reference	0.28926	0.03
52DAP/reference	0.27595	0.009
57DAP/reference	0.26641	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83264	0.038
17DAP/reference	0.84233	0.12
27DAP/reference	0.80832	0.081
39DAP/reference	0.54291	0.019
41DAP/reference	0.72018	0.029
42DAP/reference	0.62876	0.035
43DAP/reference	0.34988	0.004
47DAP/reference	0.42423	0.008
52DAP/reference	0.39236	0.007
57DAP/reference	0.26532	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.3715	0.015
17DAP/reference	2.25101	0.153
27DAP/reference	1.41177	0.059
39DAP/reference	1.02063	1
41DAP/reference	0.73166	0.046
42DAP/reference	0.52053	0.02
43DAP/reference	0.52669	0.019
47DAP/reference	0.46668	0.007
52DAP/reference	0.32822	0.047
57DAP/reference	0.83669	0.165

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93947	1
26DAP/20DAP	0.96231	1
34DAP/26DAP	1.0527	0.819
51DAP/34DAP	0.72394	0.106
52DAP/51DAP	1.12966	0.271
53DAP/52DAP	0.97273	0.844
55DAP/53DAP	0.99533	0.917
57DAP/55DAP	0.94903	0.76
62DAP/57DAP	1.21437	0.393
68DAP/62DAP	0.99243	0.885
68DAP/14DAP	0.39846

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.84737	0.102

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	4.66444	0.058
Mature Green Tomato/Ripe Tomato	2.94594	0.017
Immature Eggplant/Mature Eggplant	0.26126	0.058
Ripe Pepper/Ripe Tomato	45.2898	1
Mature Eggplant/Ripe Tomato	322.941	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.23425
12-2/M82	N/A	N/A
12-4/M82	1.01739	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
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	1.38143
4-3-2/M82	1.26014	0.225
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.02834	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.18061	0.365
IL2-6/WTpooled	1.00614	1
IL7-5/WTpooled	0.84169
IL7-3/WTpooled	0.83226	0.31
IL12-4/WTpooled	0.82171	0.71
IL1-4/WTpooled	1.1648	1
WT/WTpooled	0.8654	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	0.97803	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99298	1
DC3000/delta hrp 6h	1.20197	1
DC3000/delta hrp 12h	1.56055	1
DC3000/delta hrp 24h	1.05692	0.453

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.68204	0.025
DC3000 delta B/DC3000 delta AB	0.55529	0.035

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.00198	1
Exp 36h	0.73136	0.589
Exp 60h	0.70529	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00079	1
Var 0h	0.93455	1
Var 12h I row2-row1	1.01553	0.736
Var 12h NI row2-row1	0.97182	0.82
Var 36h I row2-row1	0.7984	0.805
Var 36h NI row2-row1	1.04251	1
Var 60h I row2-row1	1.37503	0.543
Var 60h NI row2-row1	1.05282	0.904
Time course 0hI-0hNI	1.01841	0.852
Time course 12hI-12hNI	1.00374	0.888
Time course 36hI-36hNI	1.02001	0.58
Time course 60hI-60hNI	0.63218	0.011

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)	1.03638	0.863
transgenic ySAMdc/azygous control (breaker)	1.42116	0.248
transgenic ySAMdc/azygous control (red)	1.02176	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.54025	0.077

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	2.41357	0.227

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	5.94833	0.096
Manapal/WT (break)	1.69322	0.183
Manapal/WT (red)	2.76521	1