Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.11.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.16705	0.709
27DAP/17DAP	1.47076	0.632
39DAP/27DAP	1.38398	0.183
41DAP/39DAP	1.12805	0.553
42DAP/41DAP	1.0325	1
43DAP/42DAP	1.10213	0.962
47DAP/43DAP	1.02513	0.92
52DAP/47DAP	1.47415	0.615
57DAP/52DAP	1.42926	0.907

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94658	0.455
17DAP/reference	0.97099	0.664
27DAP/reference	0.89675	0.359
39DAP/reference	1.08098	0.991
41DAP/reference	0.85228	0.267
42DAP/reference	0.71846	0.005
43DAP/reference	1.10102	0.646
47DAP/reference	0.86416	0.055
52DAP/reference	0.70319	0.108
57DAP/reference	1.10315	0.901

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96569	0.697
27DAP/17DAP	1.15327	0.413
39DAP/27DAP	1.11174	0.615
41DAP/39DAP	1.03274	0.997
42DAP/41DAP	1.08674	0.675
43DAP/42DAP	0.97324	0.665
47DAP/43DAP	1.00931	0.969
52DAP/47DAP	0.83406	0.157
57DAP/52DAP	0.915	0.379
57DAP/7DAP	1.35731	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1361	0.318
17DAP/reference	1.07339	1
27DAP/reference	0.78935	0.018
39DAP/reference	0.8307	0.126
41DAP/reference	0.7144	0.012
42DAP/reference	0.77373	0.021
43DAP/reference	0.95048	0.403
47DAP/reference	0.94066	0.504
52DAP/reference	1.01867	1
57DAP/reference	1.23856	0.158

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96419	0.623
17DAP/reference	0.77167	0.024
27DAP/reference	0.96387	0.519
39DAP/reference	1.06066	1
41DAP/reference	0.81789	0.118
42DAP/reference	0.78713	0.039
43DAP/reference	1.07947	0.919
47DAP/reference	0.80251	0.077
52DAP/reference	0.83428	0.121
57DAP/reference	1.04876	0.72

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86503	0.065
17DAP/reference	0.87207	0.292
27DAP/reference	0.8667	0.206
39DAP/reference	0.85496	0.133
41DAP/reference	0.88167	0.209
42DAP/reference	0.88771	0.287
43DAP/reference	0.96543	0.523
47DAP/reference	0.79167	0.049
52DAP/reference	0.91365	0.444
57DAP/reference	0.87962	0.268

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97711	1
26DAP/20DAP	1.13102	0.718
34DAP/26DAP	1.09007	1
51DAP/34DAP	1.30107	0.079
52DAP/51DAP	1.07265	0.792
53DAP/52DAP	1.10401	0.594
55DAP/53DAP	1.05867	0.955
57DAP/55DAP	1.14238	0.826
62DAP/57DAP	1.06045	0.935
68DAP/62DAP	0.8718	0.579
68DAP/14DAP	1.02411	0.889

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.99712	0.774

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.64178	0.193
Mature Green Tomato/Ripe Tomato	1.13203	0.185
Immature Eggplant/Mature Eggplant	4.52624	0.05
Ripe Pepper/Ripe Tomato	1.15523	0.258
Mature Eggplant/Ripe Tomato	0.96018	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90181	0.907
1-1-2/M82	1.04295	1
12-2/M82	1.10298	1
12-4/M82	0.65847	0.619
1-3/M82	1.35019
2-1-1/M82	1.26976	0.311
2-1/M82	1.95553	0.328
2-6/M82	0.95799	1
3-2/M82	0.97485	1
4-1-1/M82	1.03239	1
4-1/M82	N/A	N/A
4-3-2/M82	1.28103	0.508
4-3/M82	1.17748	1
5-3/M82	1.1259	0.455
6-2/M82	1.30376
6-3/M82	0.93363	1
7-1/M82	0.92707	1
7-2/M82	1.40283	1
9-3-2/M82	1.04982	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.80536
IL2-6/WTpooled	1.07142	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.89722	1
IL12-4/WTpooled	1.32809	0.532
IL1-4/WTpooled	0.88531	0.415
WT/WTpooled	1.01909	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	1.08798	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94263	1
DC3000/delta hrp 6h	0.86046	0.95
DC3000/delta hrp 12h	1.22287	1
DC3000/delta hrp 24h	1.2949	0.336

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.33485
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	1.08733	1
Exp 36h	1.74985	0.489
Exp 60h	1.4972	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04514	1
Var 0h	1.09973	0.98
Var 12h I row2-row1	1.2145	0.406
Var 12h NI row2-row1	1.16198	0.34
Var 36h I row2-row1	1.02457	1
Var 36h NI row2-row1	0.87995	0.61
Var 60h I row2-row1	0.75743	0.285
Var 60h NI row2-row1	0.99399	1
Time course 0hI-0hNI	1.04475	0.833
Time course 12hI-12hNI	1.18944	0.017
Time course 36hI-36hNI	1.7479	0.005
Time course 60hI-60hNI	3.40345	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)	0.896	0.299
transgenic ySAMdc/azygous control (breaker)	1.05626	1
transgenic ySAMdc/azygous control (red)	1.13765	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.25353	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.06693	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99974	1
Manapal/WT (break)	1.00618	1
Manapal/WT (red)	1.19575	1