Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.13.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.31831	0.014
27DAP/17DAP	1.00892	1
39DAP/27DAP	1.32638	0.583
41DAP/39DAP	1.34944	0.386
42DAP/41DAP	0.75167	0.397
43DAP/42DAP	0.73593	0.467
47DAP/43DAP	0.97942	0.902
52DAP/47DAP	2.23601	0.11
57DAP/52DAP	0.74575	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.13006	0.116
17DAP/reference	1.09119	0.143
27DAP/reference	0.95096	0.406
39DAP/reference	1.02729	0.76
41DAP/reference	1.14828	0.073
42DAP/reference	0.90816	0.046
43DAP/reference	0.9768	0.675
47DAP/reference	0.85354	0.038
52DAP/reference	0.77126	0.037
57DAP/reference	0.88533	0.031

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.2651	0.024
27DAP/17DAP	1.1242	0.798
39DAP/27DAP	1.47118
41DAP/39DAP	1.36985	0.033
42DAP/41DAP	0.91447	0.499
43DAP/42DAP	1.45986	0.049
47DAP/43DAP	0.91446	0.466
52DAP/47DAP	1.24768	0.449
57DAP/52DAP	1.80575	0.056
57DAP/7DAP	0.91115	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.41727	0.035
17DAP/reference	1.04745	0.896
27DAP/reference	1.03476	0.804
39DAP/reference	1.06232	0.779
41DAP/reference	1.07623	0.949
42DAP/reference	0.95148	0.32
43DAP/reference	1.13608	0.087
47DAP/reference	1.09943	0.304
52DAP/reference	0.90492	0.196
57DAP/reference	1.1075	0.438

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18571	0.082
17DAP/reference	0.99679	0.711
27DAP/reference	0.98583	0.576
39DAP/reference	0.97251	0.485
41DAP/reference	0.92522	0.205
42DAP/reference	0.96973	0.482
43DAP/reference	1.22968	0.03
47DAP/reference	1.03143	0.621
52DAP/reference	1.05204	1
57DAP/reference	1.06804	0.93

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29059	0.027
17DAP/reference	0.89779	0.205
27DAP/reference	1.15874	0.149
39DAP/reference	0.94099	0.147
41DAP/reference	0.90961	0.209
42DAP/reference	0.76813	0.041
43DAP/reference	0.80003	0.068
47DAP/reference	0.9033	0.278
52DAP/reference	0.97731	0.69
57DAP/reference	0.72186	0.031

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.31658	0.966
26DAP/20DAP	0.94567	1
34DAP/26DAP	0.71515	0.364
51DAP/34DAP	N/A	N/A
52DAP/51DAP	0.93924	1
53DAP/52DAP	1.17305	0.678
55DAP/53DAP	0.97283	0.82
57DAP/55DAP	0.76842	0.194
62DAP/57DAP	1.15383	0.868
68DAP/62DAP	0.68952	0.668
68DAP/14DAP	0.82724

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.23907	0.023

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.18632	0.017
Immature Eggplant/Mature Eggplant	12.1332	0.05
Ripe Pepper/Ripe Tomato	0.12535	0.293
Mature Eggplant/Ripe Tomato	0.20533	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.1689
1-1-2/M82	0.99973
12-2/M82	2.39436
12-4/M82	0.95314	1
1-3/M82	2.688
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.17414	1
3-2/M82	N/A	N/A
4-1-1/M82	1.80968
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.05168
5-3/M82	1.03708	1
6-2/M82	N/A	N/A
6-3/M82	0.93872	1
7-1/M82	2.19392	0.741
7-2/M82	2.15415	0.385
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.39764	0.277
IL2-6/WTpooled	1.29813	0.419
IL7-5/WTpooled	0.9857	1
IL7-3/WTpooled	1.28507	1
IL12-4/WTpooled	1.11652	0.557
IL1-4/WTpooled	0.90776	0.699
WT/WTpooled	1.0252	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	1.30983	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97461	1
DC3000/delta hrp 6h	1.13326	1
DC3000/delta hrp 12h	0.92935	1
DC3000/delta hrp 24h	2.44825	0.028

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.14402	0.121
DC3000 delta B/DC3000 delta AB	1.20622	0.296

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05899	1
Exp 36h	1.44936	0.326
Exp 60h	1.30176	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98196	1
Var 0h	2.19454	0.936
Var 12h I row2-row1	1.30357	0.263
Var 12h NI row2-row1	1.04764	0.649
Var 36h I row2-row1	0.88043	0.805
Var 36h NI row2-row1	1.24651	0.276
Var 60h I row2-row1	0.64321	0.285
Var 60h NI row2-row1	1.34235	0.904
Time course 0hI-0hNI	1.06691	0.852
Time course 12hI-12hNI	1.2196	0.078
Time course 36hI-36hNI	1.17161	0.017
Time course 60hI-60hNI	1.25537	0.302

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)	1.90349	0.431
transgenic ySAMdc/azygous control (breaker)	0.46775	0.118
transgenic ySAMdc/azygous control (red)	1.35022	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.12813	0.177

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.7364	0.268

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.7031	1
Manapal/WT (break)	0.56855	1
Manapal/WT (red)	0.41601	0.188