Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.18.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06719	0.878
27DAP/17DAP	1.17943	0.793
39DAP/27DAP	1.05026	0.992
41DAP/39DAP	1.06997	0.894
42DAP/41DAP	0.94241	1
43DAP/42DAP	0.97478	0.925
47DAP/43DAP	1.03206	0.95
52DAP/47DAP	0.87126	0.641
57DAP/52DAP	0.97361	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96251	0.465
17DAP/reference	0.79863	0.026
27DAP/reference	1.12648	0.252
39DAP/reference	0.79384	0.009
41DAP/reference	0.81003	0.085
42DAP/reference	1.12571	0.585
43DAP/reference	0.82791	0.025
47DAP/reference	1.18757	0.365
52DAP/reference	1.69856	0.015
57DAP/reference	1.38517	0.035

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94749	0.595
27DAP/17DAP	1.06068	0.924
39DAP/27DAP	1.13278	0.478
41DAP/39DAP	1.0516	0.895
42DAP/41DAP	1.12783	0.495
43DAP/42DAP	1.07307	0.094
47DAP/43DAP	1.01891	0.948
52DAP/47DAP	1.31176	0.237
57DAP/52DAP	1.0697	0.768
57DAP/7DAP	0.85842	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07138	0.524
17DAP/reference	1.26563	0.019
27DAP/reference	1.20225	0.035
39DAP/reference	1.60515	0.008
41DAP/reference	1.65734	0.045
42DAP/reference	1.55455	0.007
43DAP/reference	1.73895	0.009
47DAP/reference	1.27503	0.279
52DAP/reference	1.39378	0.031
57DAP/reference	1.3668	0.011

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91513	0.248
17DAP/reference	0.8512	0.015
27DAP/reference	1.04644	1
39DAP/reference	1.46844	0.047
41DAP/reference	1.38124	0.02
42DAP/reference	1.41271	0.01
43DAP/reference	0.79435	0.114
47DAP/reference	1.09234	0.388
52DAP/reference	1.15923	0.074
57DAP/reference	0.89896	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03351	0.984
17DAP/reference	1.00517	0.778
27DAP/reference	1.25328	0.034
39DAP/reference	1.33758	0.019
41DAP/reference	1.24277	0.062
42DAP/reference	1.50714	0.18
43DAP/reference	1.61543	0.04
47DAP/reference	1.02796	0.754
52DAP/reference	1.37429	0.278
57DAP/reference	2.78688	0.013

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90966	1
26DAP/20DAP	0.8432	0.512
34DAP/26DAP	0.90999	0.479
51DAP/34DAP	1.01481	1
52DAP/51DAP	0.91955	1
53DAP/52DAP	1.16822	0.594
55DAP/53DAP	0.75427	0.176
57DAP/55DAP	1.40543	0.779
62DAP/57DAP	1.17601	0.833
68DAP/62DAP	1.77633	0.139
68DAP/14DAP	1.95865	0.036

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0736	0.782

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.50773
Mature Green Tomato/Ripe Tomato	1.18749	0.523
Immature Eggplant/Mature Eggplant	10.516
Ripe Pepper/Ripe Tomato	0.56237	0.293
Mature Eggplant/Ripe Tomato	0.65818	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02052	1
1-1-2/M82	0.95928	1
12-2/M82	1.17238	1
12-4/M82	1.04467	1
1-3/M82	1.07497	0.277
2-1-1/M82	1.12505	0.764
2-1/M82	N/A	N/A
2-6/M82	1.0794	1
3-2/M82	1.10681	0.439
4-1-1/M82	0.97535	1
4-1/M82	1.17514	0.853
4-3-2/M82	0.82703	0.487
4-3/M82	0.9751	1
5-3/M82	0.91396	1
6-2/M82	1.0366	1
6-3/M82	1.03853	1
7-1/M82	N/A	N/A
7-2/M82	1.0208	1
9-3-2/M82	1.00196

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.05118	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.95497	1
IL12-4/WTpooled	1.25232	0.624
IL1-4/WTpooled	0.83229
WT/WTpooled	1.05472	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	1.08736	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02474	0.921
DC3000/delta hrp 6h	1.15762	1
DC3000/delta hrp 12h	1.3119	1
DC3000/delta hrp 24h	1.14695	0.254

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.52528	0.16
DC3000 delta B/DC3000 delta AB	1.25893	0.204

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.99537	1
Exp 36h	1.51917	1
Exp 60h	0.94556	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9006
Var 0h	1.04556	1
Var 12h I row2-row1	1.062	0.692
Var 12h NI row2-row1	0.80401	0.494
Var 36h I row2-row1	0.91209	1
Var 36h NI row2-row1	1.16001	1
Var 60h I row2-row1	1.10496	1
Var 60h NI row2-row1	1.35609	0.904
Time course 0hI-0hNI	1.25686	0.799
Time course 12hI-12hNI	1.08349	0.327
Time course 36hI-36hNI	0.97267	0.373
Time course 60hI-60hNI	0.98417	1

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)	1.08422	0.798
transgenic ySAMdc/azygous control (breaker)	0.61413	0.173
transgenic ySAMdc/azygous control (red)	0.98686	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95433	0.105

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.95156	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.76128	1
Manapal/WT (break)	1.18409	1
Manapal/WT (red)	0.65557	0.199