Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.1.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01374	0.938
27DAP/17DAP	0.98556	0.934
39DAP/27DAP	0.87319	0.573
41DAP/39DAP	1.0043	0.934
42DAP/41DAP	1.1021	0.997
43DAP/42DAP	0.98917	0.934
47DAP/43DAP	0.79008	0.34
52DAP/47DAP	1.18901	0.967
57DAP/52DAP	1.29455	0.955

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96887	0.371
17DAP/reference	1.06061	0.108
27DAP/reference	0.95298	0.444
39DAP/reference	1.01589	0.691
41DAP/reference	1.0888	0.312
42DAP/reference	0.93084	0.054
43DAP/reference	1.05213	0.495
47DAP/reference	0.88716	0.006
52DAP/reference	0.78083	0.042
57DAP/reference	0.82638	0.011

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99119	0.75
27DAP/17DAP	1.0156	1
39DAP/27DAP	0.90466	0.572
41DAP/39DAP	0.87969	0.465
42DAP/41DAP	0.95429	0.721
43DAP/42DAP	1.26231	0.134
47DAP/43DAP	0.93355	0.696
52DAP/47DAP	1.06398	0.819
57DAP/52DAP	1.41321	0.089
57DAP/7DAP	1.95627	0.23

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06441	0.664
17DAP/reference	1.25791	0.022
27DAP/reference	1.29925	0.02
39DAP/reference	1.42182	0.006
41DAP/reference	1.52791	0.027
42DAP/reference	1.45665	0.014
43DAP/reference	1.48576	0.02
47DAP/reference	1.23976	0.304
52DAP/reference	1.32315	0.183
57DAP/reference	1.19072	0.125

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03277	0.802
17DAP/reference	1.10578	0.518
27DAP/reference	0.87657	0.06
39DAP/reference	1.01636	1
41DAP/reference	0.85241	0.053
42DAP/reference	0.86693	0.055
43DAP/reference	1.03161	0.957
47DAP/reference	0.94182	0.149
52DAP/reference	0.96065	0.576
57DAP/reference	1.17985	0.055

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20684	0.106
17DAP/reference	1.16352	0.203
27DAP/reference	1.29715	0.056
39DAP/reference	1.23787	0.078
41DAP/reference	1.20736	0.067
42DAP/reference	1.30159	0.097
43DAP/reference	1.08615	0.655
47DAP/reference	0.97961	0.525
52DAP/reference	1.55808	0.088
57DAP/reference	0.77626	0.055

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.98222	1
26DAP/20DAP	1.52446
34DAP/26DAP	1.07193	1
51DAP/34DAP	1.35537	0.043
52DAP/51DAP	0.98845	1
53DAP/52DAP	1.86268	0.594
55DAP/53DAP	0.97713	0.735
57DAP/55DAP	0.96007	0.823
62DAP/57DAP	1.3221	0.902
68DAP/62DAP	1.03412	1
68DAP/14DAP	1.11711	0.694

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.2036	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.73313	0.29
Mature Green Tomato/Ripe Tomato	1.1781	0.577
Immature Eggplant/Mature Eggplant	1.09147	0.485
Ripe Pepper/Ripe Tomato	0.91069	1
Mature Eggplant/Ripe Tomato	1.15624	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.00459
12-2/M82	N/A	N/A
12-4/M82	0.83696	0.619
1-3/M82	N/A	N/A
2-1-1/M82	1.25054
2-1/M82	N/A	N/A
2-6/M82	0.7572
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.92438	0.49
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.09482
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	1.40045
IL12-4/WTpooled	0.65654
IL1-4/WTpooled	1.03595
WT/WTpooled	0.46116

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	0.97382	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06422
DC3000/delta hrp 6h	1.1393	1
DC3000/delta hrp 12h	1.02674	1
DC3000/delta hrp 24h	1.14065	0.397

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	1.31275	1
Exp 36h	1.09514	1
Exp 60h	1.14742	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0565	1
Var 0h	0.99144	1
Var 12h I row2-row1	1.02354
Var 12h NI row2-row1	0.91461
Var 36h I row2-row1	0.85571	1
Var 36h NI row2-row1	1.01349	1
Var 60h I row2-row1	1.00421
Var 60h NI row2-row1	0.60998	0.977
Time course 0hI-0hNI	0.81143	0.618
Time course 12hI-12hNI	1.09777	0.678
Time course 36hI-36hNI	1.04378	0.513
Time course 60hI-60hNI	1.06184	0.359

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)	0.89444	0.246
transgenic ySAMdc/azygous control (breaker)	0.89297	0.49
transgenic ySAMdc/azygous control (red)	1.00919	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99729	0.784

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.11438	0.223

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98278	1
Manapal/WT (break)	0.8942	1
Manapal/WT (red)	0.79041	0.229