Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.8.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96466	0.713
27DAP/17DAP	0.98783	0.923
39DAP/27DAP	1.08938	0.841
41DAP/39DAP	0.86183	0.457
42DAP/41DAP	0.699	0.774
43DAP/42DAP	1.05436	1
47DAP/43DAP	0.72461	0.266
52DAP/47DAP	1.28186	0.593
57DAP/52DAP	0.89826	0.878

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78717	0.254
17DAP/reference	0.94844	0.503
27DAP/reference	0.99021	0.725
39DAP/reference	1.02628	1
41DAP/reference	0.90638	0.267
42DAP/reference	0.98509	0.398
43DAP/reference	1.10846	0.047
47DAP/reference	1.14497	0.264
52DAP/reference	1.2798	0.128
57DAP/reference	1.27609	0.041

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93444	0.484
27DAP/17DAP	1.00296	1
39DAP/27DAP	0.84437	0.076
41DAP/39DAP	1.06962	0.895
42DAP/41DAP	0.91922	0.429
43DAP/42DAP	0.8938	0.28
47DAP/43DAP	0.96662	0.846
52DAP/47DAP	0.62594	0.041
57DAP/52DAP	0.70692	0.218
57DAP/7DAP	0.39835	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83416	0.146
17DAP/reference	1.18983	0.477
27DAP/reference	1.02263	0.974
39DAP/reference	1.01446	1
41DAP/reference	1.04763	0.891
42DAP/reference	1.23092	0.037
43DAP/reference	1.23002	0.043
47DAP/reference	1.0964	0.377
52DAP/reference	1.02178	0.802
57DAP/reference	0.98648	0.549

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93005	0.374
17DAP/reference	0.88603	0.214
27DAP/reference	0.94279	0.381
39DAP/reference	0.96765	0.404
41DAP/reference	0.97345	0.481
42DAP/reference	1.09497	0.899
43DAP/reference	1.21633	0.128
47DAP/reference	0.94763	0.4
52DAP/reference	1.02143	1
57DAP/reference	0.96682	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94181	0.335
17DAP/reference	1.03149	0.746
27DAP/reference	0.97953	0.624
39DAP/reference	1.11204	0.342
41DAP/reference	1.09152	0.674
42DAP/reference	0.91228	0.287
43DAP/reference	0.99013	0.712
47DAP/reference	1.09932	0.251
52DAP/reference	0.96038	0.611
57DAP/reference	1.00904	0.801

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01276	1
26DAP/20DAP	2.45083	0.139
34DAP/26DAP	0.76148	0.261
51DAP/34DAP	0.95997	0.714
52DAP/51DAP	0.9504	1
53DAP/52DAP	1.5515
55DAP/53DAP	1.04927	0.755
57DAP/55DAP	1.57379	0.694
62DAP/57DAP	0.89384	0.871
68DAP/62DAP	1.27858	0.657
68DAP/14DAP	1.3675

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.77149	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.45972	0.69
Immature Eggplant/Mature Eggplant	1.13488
Ripe Pepper/Ripe Tomato	0.34764	1
Mature Eggplant/Ripe Tomato	1.12621	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01042	1
1-1-2/M82	0.98232	1
12-2/M82	1.06307	1
12-4/M82	1.15726	0.694
1-3/M82	0.82662
2-1-1/M82	N/A	N/A
2-1/M82	1.0904
2-6/M82	0.86716
3-2/M82	1.04378
4-1-1/M82	1.08014
4-1/M82	1.41169	0.225
4-3-2/M82	1.18281	1
4-3/M82	0.87636	0.72
5-3/M82	0.97386	1
6-2/M82	0.79903
6-3/M82	1.08065	1
7-1/M82	1.15943
7-2/M82	0.94799	1
9-3-2/M82	1.05618	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.09028	0.493
IL2-6/WTpooled	1.21041	0.788
IL7-5/WTpooled	1.0401	1
IL7-3/WTpooled	1.07242	1
IL12-4/WTpooled	0.5762	0.484
IL1-4/WTpooled	1.03246	1
WT/WTpooled	1.05767	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	1.22206	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99469	1
DC3000/delta hrp 6h	0.83872	0.95
DC3000/delta hrp 12h	1.04439	1
DC3000/delta hrp 24h	0.92982	0.412

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.28876	0.102
DC3000 delta B/DC3000 delta AB	1.40609	0.147

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	0.88505	0.749
Exp 60h	1.14557	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	N/A	N/A
Var 12h I row2-row1	0.97242	0.627
Var 12h NI row2-row1	1.1838	0.649
Var 36h I row2-row1	1.14852	0.742
Var 36h NI row2-row1	0.89301	0.743
Var 60h I row2-row1	0.86617	0.285
Var 60h NI row2-row1	0.82988	0.351
Time course 0hI-0hNI	1.0545	0.799
Time course 12hI-12hNI	1.04392	0.81
Time course 36hI-36hNI	1.15573	0.401
Time course 60hI-60hNI	1.54621	0.025

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)	0.8744	0.314
transgenic ySAMdc/azygous control (breaker)	1.1452	1
transgenic ySAMdc/azygous control (red)	0.98157	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00041	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84909	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.10738	1
Manapal/WT (break)	0.93957	1
Manapal/WT (red)	1.24328	0.134