Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.3.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9292	0.596
27DAP/17DAP	1.0784	1
39DAP/27DAP	1.23545	0.511
41DAP/39DAP	0.85602	0.516
42DAP/41DAP	1.0962	0.903
43DAP/42DAP	1.1102	0.968
47DAP/43DAP	0.9408	0.716
52DAP/47DAP	1.08378	0.903
57DAP/52DAP	1.39714	0.826

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98908	0.526
17DAP/reference	0.71329	0.007
27DAP/reference	0.84605	0.249
39DAP/reference	0.59864	0.013
41DAP/reference	0.72507	0.049
42DAP/reference	0.91588	0.059
43DAP/reference	1.0208	1
47DAP/reference	1.15363	0.708
52DAP/reference	1.07775	0.407
57DAP/reference	1.16283

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.43514	0.168
27DAP/17DAP	0.889	0.748
39DAP/27DAP	0.95866	0.833
41DAP/39DAP	0.98617	1
42DAP/41DAP	1.25485	0.036
43DAP/42DAP	1.01591	0.788
47DAP/43DAP	1.04789	0.92
52DAP/47DAP	1.08691	0.71
57DAP/52DAP	1.25988	0.358
57DAP/7DAP	1.01177	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72032	0.088
17DAP/reference	0.80248	0.082
27DAP/reference	0.89151	0.031
39DAP/reference	0.61507	0.013
41DAP/reference	0.7619	0.015
42DAP/reference	0.61591	0.011
43DAP/reference	0.6394	0.011
47DAP/reference	0.88494	0.293
52DAP/reference	0.67225	0.015
57DAP/reference	0.88629	0.176

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92406	0.399
17DAP/reference	0.75892	0.086
27DAP/reference	1.14715	0.455
39DAP/reference	1.32936	0.03
41DAP/reference	0.98703	0.545
42DAP/reference	0.89344	0.089
43DAP/reference	0.88569	0.298
47DAP/reference	0.74895	0.021
52DAP/reference	1.18046	0.279
57DAP/reference	0.80038	0.099

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90602	0.268
17DAP/reference	0.95703	0.56
27DAP/reference	0.934	0.065
39DAP/reference	0.93485	0.222
41DAP/reference	0.9099	0.264
42DAP/reference	1.06027	0.658
43DAP/reference	1.47446	0.048
47DAP/reference	1.07353	0.519
52DAP/reference	0.88656	0.141
57DAP/reference	1.59496	0.027

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.40736	0.117
26DAP/20DAP	1.14249	0.487
34DAP/26DAP	1.06466	1
51DAP/34DAP	1.27179	0.084
52DAP/51DAP	0.95774	1
53DAP/52DAP	1.07399	0.768
55DAP/53DAP	0.80291	0.21
57DAP/55DAP	0.98764	0.899
62DAP/57DAP	1.10379	0.902
68DAP/62DAP	1.9482	0.011
68DAP/14DAP	2.59838	0.065

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.71099	0.035

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.86396	0.343
Mature Green Tomato/Ripe Tomato	0.74536	0.148
Immature Eggplant/Mature Eggplant	0.75427	0.081
Ripe Pepper/Ripe Tomato	1.63134	1
Mature Eggplant/Ripe Tomato	1.02283	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.90091	0.69
1-1-2/M82	1.08726	1
12-2/M82	0.98142	1
12-4/M82	0.74697	0.619
1-3/M82	1.40346
2-1-1/M82	1.09241	1
2-1/M82	N/A	N/A
2-6/M82	1.08721	0.695
3-2/M82	N/A	N/A
4-1-1/M82	0.8595	1
4-1/M82	0.76589
4-3-2/M82	N/A	N/A
4-3/M82	1.03756	1
5-3/M82	1.08804	1
6-2/M82	0.91909	0.444
6-3/M82	0.89987	0.387
7-1/M82	0.79525
7-2/M82	1.09371
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.82138	0.321
IL2-6/WTpooled	0.97372	1
IL7-5/WTpooled	0.8063	1
IL7-3/WTpooled	0.89767	1
IL12-4/WTpooled	1.09549	0.891
IL1-4/WTpooled	1.0356	1
WT/WTpooled	1.04178	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	1.18097	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.13925	0.921
DC3000/delta hrp 6h	0.96533	0.95
DC3000/delta hrp 12h	1.4715	1
DC3000/delta hrp 24h	1.12314	0.221

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87018	1
Exp 36h	1.11812	1
Exp 60h	1.09983	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05382
Var 0h	1.20826	0.782
Var 12h I row2-row1	1.18531	0.692
Var 12h NI row2-row1	1.54443	0.34
Var 36h I row2-row1	1.46833	0.908
Var 36h NI row2-row1	0.71913	0.225
Var 60h I row2-row1	1.05387
Var 60h NI row2-row1	0.90833	0.818
Time course 0hI-0hNI	0.92821	0.43
Time course 12hI-12hNI	1.04574	0.73
Time course 36hI-36hNI	1.44662	0.015
Time course 60hI-60hNI	1.22992	0.16

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)	1.03853	0.318
transgenic ySAMdc/azygous control (breaker)	1.6613	0.178
transgenic ySAMdc/azygous control (red)	1.14754	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04896	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.89608	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.14629	0.14
Manapal/WT (break)	1.36924	0.381
Manapal/WT (red)	1.44495	0.15