Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.13.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04053	0.839
27DAP/17DAP	1.10218	0.872
39DAP/27DAP	1.40378	0.985
41DAP/39DAP	1.90777	0.328
42DAP/41DAP	0.88094	1
43DAP/42DAP	0.78932	0.434
47DAP/43DAP	0.91448	0.609
52DAP/47DAP	1.12817	0.922
57DAP/52DAP	0.91579	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23853	0.081
17DAP/reference	0.98219	0.737
27DAP/reference	0.9591	0.497
39DAP/reference	0.98487	0.734
41DAP/reference	0.86246	0.114
42DAP/reference	0.99578	0.567
43DAP/reference	0.93225	0.331
47DAP/reference	0.8866	0.012
52DAP/reference	0.90887	0.152
57DAP/reference	1.03553	0.643

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.62549	0.057
27DAP/17DAP	1.02541	1
39DAP/27DAP	0.95623	0.732
41DAP/39DAP	1.26223	0.65
42DAP/41DAP	0.88708	0.318
43DAP/42DAP	1.14978	0.478
47DAP/43DAP	1.01241	1
52DAP/47DAP	0.98053	0.919
57DAP/52DAP	1.08527	0.679
57DAP/7DAP	0.8925	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08034	0.6
17DAP/reference	1.08739	0.688
27DAP/reference	0.92811	0.248
39DAP/reference	1.32655	0.007
41DAP/reference	1.25165	0.018
42DAP/reference	1.3212	0.03
43DAP/reference	1.36684	0.034
47DAP/reference	0.88436	0.222
52DAP/reference	1.12701	0.428
57DAP/reference	1.21738	0.087

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11739	0.261
17DAP/reference	1.10041	0.357
27DAP/reference	0.97349	0.34
39DAP/reference	1.06629	0.657
41DAP/reference	1.02764	1
42DAP/reference	1.10334	0.294
43DAP/reference	1.31865	0.338
47DAP/reference	1.08312	0.101
52DAP/reference	1.20297	0.279
57DAP/reference	1.12941	0.26

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98973	0.653
17DAP/reference	1.16307	0.264
27DAP/reference	1.18127	0.038
39DAP/reference	1.15263	0.275
41DAP/reference	1.11291	0.333
42DAP/reference	1.05795	0.6
43DAP/reference	0.86567	0.04
47DAP/reference	1.00915	0.687
52DAP/reference	1.00398	0.928
57DAP/reference	1.04285	0.706

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.28174	0.752
26DAP/20DAP	0.84379	0.512
34DAP/26DAP	1.36802	0.304
51DAP/34DAP	0.90805	0.606
52DAP/51DAP	0.83265	1
53DAP/52DAP	1.1223	0.489
55DAP/53DAP	1.1217	0.656
57DAP/55DAP	0.93064	0.748
62DAP/57DAP	1.00552	0.935
68DAP/62DAP	0.96987	0.863
68DAP/14DAP	1.13684	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.88665	0.224

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.84284	0.611
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	1.09297	1
1-1-2/M82	0.65666
12-2/M82	1.35085
12-4/M82	0.84104	1
1-3/M82	0.78028	0.441
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.9502	1
3-2/M82	0.70945
4-1-1/M82	1.17027	1
4-1/M82	1.68415
4-3-2/M82	1.07066
4-3/M82	N/A	N/A
5-3/M82	0.85756	1
6-2/M82	0.73578	1
6-3/M82	1.02226	1
7-1/M82	N/A	N/A
7-2/M82	0.77147	0.527
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.01082	1
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	0.95174

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	5.18372	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.86737	0.642
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.03131	1
DC3000/delta hrp 24h	N/A	N/A

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	1.14768

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.18462	1
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	0.90104	1
Var 0h	0.87979	0.933
Var 12h I row2-row1	1.09982	0.222
Var 12h NI row2-row1	0.81029	0.466
Var 36h I row2-row1	0.76879	1
Var 36h NI row2-row1	0.73428	0.645
Var 60h I row2-row1	0.73414	0.502
Var 60h NI row2-row1	0.60022	0.977
Time course 0hI-0hNI	0.95345	0.729
Time course 12hI-12hNI	1.16427	0.164
Time course 36hI-36hNI	1.76977	0.005
Time course 60hI-60hNI	2.47127	0.009

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)	1.97181	0.654
transgenic ySAMdc/azygous control (breaker)	2.29135	1
transgenic ySAMdc/azygous control (red)	1.66555	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99454	0.694

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.55822	0.238

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)	0.89461	0.248
Manapal/WT (red)	0.8768	0.503