Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.3.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78644	0.077
27DAP/17DAP	0.93824	0.889
39DAP/27DAP	1.37965	0.325
41DAP/39DAP	1.05474	0.685
42DAP/41DAP	1.18108	0.773
43DAP/42DAP	0.91569	0.864
47DAP/43DAP	1.09901	0.542
52DAP/47DAP	1.1118	0.869
57DAP/52DAP	1.3952	0.735

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22199	0.075
17DAP/reference	0.78063	0.014
27DAP/reference	1.32177	0.863
39DAP/reference	0.89698	0.467
41DAP/reference	0.79223	0.039
42DAP/reference	0.98405	0.469
43DAP/reference	1.14131
47DAP/reference	1.1963	0.071
52DAP/reference	1.42804	0.041
57DAP/reference	1.07744	0.927

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00966	1
27DAP/17DAP	0.94194	0.821
39DAP/27DAP	0.96598	0.712
41DAP/39DAP	0.97754	0.973
42DAP/41DAP	0.94903	0.607
43DAP/42DAP	0.98954	0.854
47DAP/43DAP	1.02674	0.901
52DAP/47DAP	0.90285	0.666
57DAP/52DAP	0.98446	0.823
57DAP/7DAP	1.16118	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21879	0.144
17DAP/reference	1.01468	1
27DAP/reference	1.01059	1
39DAP/reference	1.12898	0.157
41DAP/reference	1.12217	0.184
42DAP/reference	1.2054	0.308
43DAP/reference	1.19153	0.056
47DAP/reference	1.24509	0.083
52DAP/reference	1.05121	0.599
57DAP/reference	1.12344	0.061

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24843	0.206
17DAP/reference	0.97652	0.548
27DAP/reference	1.24088	0.31
39DAP/reference	1.21288	0.146
41DAP/reference	1.06644	0.814
42DAP/reference	1.41512	0.028
43DAP/reference	0.96627	0.516
47DAP/reference	1.18494	0.128
52DAP/reference	0.87729	0.037
57DAP/reference	0.91406	0.259

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28375	0.031
17DAP/reference	1.12151	0.563
27DAP/reference	1.03009	0.834
39DAP/reference	1.0278	1
41DAP/reference	1.01707	1
42DAP/reference	1.19468	0.521
43DAP/reference	1.40687	0.175
47DAP/reference	0.91078	0.215
52DAP/reference	1.05399	0.77
57DAP/reference	2.32206	0.01

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.74561	0.541
26DAP/20DAP	1.1857	0.442
34DAP/26DAP	1.08171	1
51DAP/34DAP	0.81943	0.274
52DAP/51DAP	0.78221	1
53DAP/52DAP	0.98653	0.897
55DAP/53DAP	0.98875	0.876
57DAP/55DAP	1.28115	0.854
62DAP/57DAP	0.34986
68DAP/62DAP	1.03047	0.991
68DAP/14DAP	1.25415	0.403

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04968	0.908

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.9929	0.863
Mature Green Tomato/Ripe Tomato	0.84273	0.182
Immature Eggplant/Mature Eggplant	1.02567	0.417
Ripe Pepper/Ripe Tomato	1.24141	1
Mature Eggplant/Ripe Tomato	1.0757	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95925	0.961
1-1-2/M82	0.77926
12-2/M82	0.86261
12-4/M82	0.68534	0.358
1-3/M82	1.65874	0.248
2-1-1/M82	1.25011
2-1/M82	0.72934
2-6/M82	0.75916	0.501
3-2/M82	0.95385
4-1-1/M82	0.808	0.962
4-1/M82	0.70172
4-3-2/M82	0.80451
4-3/M82	1.07399	1
5-3/M82	1.3005	0.572
6-2/M82	1.00214
6-3/M82	0.87761	0.982
7-1/M82	0.9282	1
7-2/M82	1.15671	1
9-3-2/M82	0.80579

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.43989	0.277
IL2-6/WTpooled	0.98329	1
IL7-5/WTpooled	1.27999	0.792
IL7-3/WTpooled	1.36211	0.362
IL12-4/WTpooled	1.22985	0.695
IL1-4/WTpooled	1.07394	1
WT/WTpooled	0.95746	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	0.91743	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99397	1
DC3000/delta hrp 6h	0.9473	0.95
DC3000/delta hrp 12h	1.0113	1
DC3000/delta hrp 24h	1.22835	0.212

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	0.94991	1
Exp 36h	1.27141	0.489
Exp 60h	1.22599	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01434	1
Var 0h	1.0475	1
Var 12h I row2-row1	1.02541	1
Var 12h NI row2-row1	1.06397	1
Var 36h I row2-row1	0.8784	1
Var 36h NI row2-row1	0.40297	0.432
Var 60h I row2-row1	1.04073	0.502
Var 60h NI row2-row1	0.88538	0.304
Time course 0hI-0hNI	0.80218	0.059
Time course 12hI-12hNI	0.9732	0.759
Time course 36hI-36hNI	0.92362	0.337
Time course 60hI-60hNI	0.59917	0.006

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)	1.0235	0.798
transgenic ySAMdc/azygous control (breaker)	1.29964	0.248
transgenic ySAMdc/azygous control (red)	0.99712	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.12377	0.194

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87443	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.24967	0.087
Manapal/WT (break)	1.16615	0.123
Manapal/WT (red)	1.78875	0.164