Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.17.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.72265	0.073
27DAP/17DAP	0.97972	0.919
39DAP/27DAP	1.48507	0.129
41DAP/39DAP	0.90811	0.623
42DAP/41DAP	1.13529	0.978
43DAP/42DAP	1.12611	0.867
47DAP/43DAP	0.83955	0.424
52DAP/47DAP	1.0639	0.848
57DAP/52DAP	1.1675	0.918

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9113	0.106
17DAP/reference	1.14381	0.014
27DAP/reference	1.03919	0.623
39DAP/reference	1.12563	0.058
41DAP/reference	1.14905	0.079
42DAP/reference	0.96498	0.202
43DAP/reference	1.04823	0.617
47DAP/reference	0.93035	0.224
52DAP/reference	0.71485	0.023
57DAP/reference	0.72566	0.012

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17817	0.138
27DAP/17DAP	1.31729	0.071
39DAP/27DAP	0.76652	0.034
41DAP/39DAP	1.28652	0.315
42DAP/41DAP	0.94887	0.576
43DAP/42DAP	0.9868	0.875
47DAP/43DAP	0.92475	0.365
52DAP/47DAP	0.94348	0.778
57DAP/52DAP	1.25697	0.471
57DAP/7DAP	0.92332	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.206	0.286
17DAP/reference	1.14276	0.092
27DAP/reference	1.18057	0.06
39DAP/reference	1.2645	0.038
41DAP/reference	1.31479	0.024
42DAP/reference	1.32257	0.024
43DAP/reference	1.40468	0.056
47DAP/reference	1.11216	0.493
52DAP/reference	1.20694	0.092
57DAP/reference	1.05803	0.268

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96144	0.487
17DAP/reference	1.02875	0.613
27DAP/reference	0.87237	0.167
39DAP/reference	0.82562	0.095
41DAP/reference	0.80606	0.053
42DAP/reference	0.85608	0.098
43DAP/reference	0.89898	0.181
47DAP/reference	1.00666	1
52DAP/reference	0.91873	0.031
57DAP/reference	0.88973	0.144

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06744	0.984
17DAP/reference	0.9861	0.727
27DAP/reference	0.98197	0.624
39DAP/reference	0.99825	0.819
41DAP/reference	1.15648	0.319
42DAP/reference	0.84822	0.172
43DAP/reference	1.09875	1
47DAP/reference	1.07265	0.279
52DAP/reference	1.18855	0.324
57DAP/reference	0.59941	0.031

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22188	0.85
26DAP/20DAP	1.41322	0.164
34DAP/26DAP	0.72475	0.066
51DAP/34DAP	1.12648	0.946
52DAP/51DAP	0.70948	1
53DAP/52DAP	0.79507	0.393
55DAP/53DAP	0.97471	0.864
57DAP/55DAP	1.27696	0.71
62DAP/57DAP	1.62913	0.767
68DAP/62DAP	2.31251	0.944
68DAP/14DAP	0.88057	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.78917	0.033

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.41953	0.287
Mature Green Tomato/Ripe Tomato	2.62043	0.058
Immature Eggplant/Mature Eggplant	0.85883	0.223
Ripe Pepper/Ripe Tomato	1.04	1
Mature Eggplant/Ripe Tomato	0.8475	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.66119	0.708
1-1-2/M82	0.93966	0.804
12-2/M82	0.76746	0.862
12-4/M82	0.80968	0.619
1-3/M82	2.28327	0.248
2-1-1/M82	0.79774	0.784
2-1/M82	0.64171	0.519
2-6/M82	0.82253	1
3-2/M82	2.28036
4-1-1/M82	1.03699	1
4-1/M82	0.90542
4-3-2/M82	1.45486
4-3/M82	1.31349	1
5-3/M82	0.95913	1
6-2/M82	1.30156	0.235
6-3/M82	1.07193	1
7-1/M82	0.99467	1
7-2/M82	1.22135	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.28703	0.365
IL2-6/WTpooled	0.673	0.473
IL7-5/WTpooled	1.13319	1
IL7-3/WTpooled	1.38151	0.362
IL12-4/WTpooled	1.2378	0.624
IL1-4/WTpooled	0.91139	0.562
WT/WTpooled	1.02889	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	1.24867	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.22053	0.846
DC3000/delta hrp 6h	1.02405	0.95
DC3000/delta hrp 12h	1.27673
DC3000/delta hrp 24h	1.03107	0.655

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	2.46698	0.406

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.10872	1
Exp 36h	1.12535	0.693
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	0.94654	1
Var 0h	0.59993	0.933
Var 12h I row2-row1	0.83678	0.338
Var 12h NI row2-row1	1.10759	0.281
Var 36h I row2-row1	1.21212	0.489
Var 36h NI row2-row1	1.81918	1
Var 60h I row2-row1	0.97899	1
Var 60h NI row2-row1	0.93511	0.977
Time course 0hI-0hNI	1.10352	0.662
Time course 12hI-12hNI	0.89221	0.216
Time course 36hI-36hNI	1.07998	0.651
Time course 60hI-60hNI	2.51524	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)	0.96913	0.614
transgenic ySAMdc/azygous control (breaker)	0.65495	0.139
transgenic ySAMdc/azygous control (red)	0.8076	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.1918	0.034

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.68232	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.57454	0.172
Manapal/WT (break)	0.61406	0.299
Manapal/WT (red)	0.82539	0.503