Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.17.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91012	0.551
27DAP/17DAP	0.86802	0.686
39DAP/27DAP	1.28569	0.293
41DAP/39DAP	0.74634	0.153
42DAP/41DAP	0.99421	1
43DAP/42DAP	1.01471	0.937
47DAP/43DAP	0.94002	0.779
52DAP/47DAP	0.815	0.461
57DAP/52DAP	1.00412	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.40558	0.017
17DAP/reference	1.35242	0.011
27DAP/reference	1.20888	0.049
39DAP/reference	1.26607	0.082
41DAP/reference	1.70205	0.013
42DAP/reference	1.32732	0.003
43DAP/reference	1.13199	0.252
47DAP/reference	1.26878	0.002
52DAP/reference	1.17946	0.069
57DAP/reference	1.00126	0.701

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99578	0.847
27DAP/17DAP	0.95467	0.295
39DAP/27DAP	0.91737	0.304
41DAP/39DAP	1.01511	1
42DAP/41DAP	1.05031	0.763
43DAP/42DAP	0.95244	0.121
47DAP/43DAP	0.99304	0.983
52DAP/47DAP	0.91981	0.726
57DAP/52DAP	1.04369	0.79
57DAP/7DAP	0.89843	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92926	0.361
17DAP/reference	0.91011	0.295
27DAP/reference	1.10536	0.664
39DAP/reference	1.05233	1
41DAP/reference	1.07949	1
42DAP/reference	0.78157	0.144
43DAP/reference	0.92284	0.21
47DAP/reference	1.04837	1
52DAP/reference	1.48613	0.086
57DAP/reference	1.27467	0.438

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.42895	0.052
17DAP/reference	1.65353	0.016
27DAP/reference	1.39762	0.05
39DAP/reference	1.60028	0.052
41DAP/reference	1.40612	0.008
42DAP/reference	1.50009	0.009
43DAP/reference	1.52959	0.152
47DAP/reference	1.31002	0.01
52DAP/reference	1.58632	0.006
57DAP/reference	1.76723	0.012

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86433	0.214
17DAP/reference	0.85392	0.528
27DAP/reference	0.83838	0.319
39DAP/reference	1.0823	0.084
41DAP/reference	1.46372	0.023
42DAP/reference	1.20778	0.18
43DAP/reference	1.82382	0.016
47DAP/reference	1.23915	0.388
52DAP/reference	0.94917	0.637
57DAP/reference	0.8196	0.141

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.81561	0.961
26DAP/20DAP	1.12239	0.727
34DAP/26DAP	0.88691	0.311
51DAP/34DAP	0.97681	0.835
52DAP/51DAP	1.0498	0.503
53DAP/52DAP	1.01447	0.944
55DAP/53DAP	0.94554	0.784
57DAP/55DAP	1.15787	0.906
62DAP/57DAP	1.2626	0.622
68DAP/62DAP	0.84933	0.609
68DAP/14DAP	0.79087	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.51203	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.65408	0.064
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.08388
12-2/M82	N/A	N/A
12-4/M82	0.85588
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	0.98693
4-1-1/M82	N/A	N/A
4-1/M82	1.51832	0.512
4-3-2/M82	1.211
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	1.2407	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.40807	0.493
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.91458
IL7-3/WTpooled	1.0398	1
IL12-4/WTpooled	1.17881	1
IL1-4/WTpooled	0.92615	0.834
WT/WTpooled	1.01279	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	0.99246	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.18665	1
DC3000/delta hrp 24h	0.94858	0.924

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.26283	0.042
DC3000 delta B/DC3000 delta AB	1.37453	0.128

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	0.98286	1
Var 0h	1.28878	0.936
Var 12h I row2-row1	1.04337	0.654
Var 12h NI row2-row1	1.04186	1
Var 36h I row2-row1	1.18071	0.601
Var 36h NI row2-row1	0.83274	0.421
Var 60h I row2-row1	0.91328	0.306
Var 60h NI row2-row1	0.87795	0.38
Time course 0hI-0hNI	1.05731	0.574
Time course 12hI-12hNI	1.03863	0.774
Time course 36hI-36hNI	1.51226	0.006
Time course 60hI-60hNI	2.89083	0.008

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)	1.63422	1
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.29897	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)	0.46246	1
Manapal/WT (red)	0.98119	0.863