Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.20.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.2512	0.477
27DAP/17DAP	1.67487	0.492
39DAP/27DAP	0.74088	0.286
41DAP/39DAP	1.45791	0.387
42DAP/41DAP	0.9668	1
43DAP/42DAP	1.1766	0.933
47DAP/43DAP	1.21442	0.555
52DAP/47DAP	0.8054	0.518
57DAP/52DAP	1.00804	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05856	0.5
17DAP/reference	0.99327	0.777
27DAP/reference	1.0142	0.806
39DAP/reference	0.99815	1
41DAP/reference	1.00749	1
42DAP/reference	1.02667	0.324
43DAP/reference	0.98309	0.611
47DAP/reference	1.07497	0.011
52DAP/reference	0.88505	0.082
57DAP/reference	0.90544	0.101

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94887	0.613
27DAP/17DAP	1.00031	1
39DAP/27DAP	1.04101	0.615
41DAP/39DAP	1.04893	0.807
42DAP/41DAP	1.03568	0.961
43DAP/42DAP	1.01386	0.664
47DAP/43DAP	0.93914	0.677
52DAP/47DAP	1.04607	0.868
57DAP/52DAP	0.99664	0.897
57DAP/7DAP	1.0026	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0588	0.555
17DAP/reference	0.8757	0.072
27DAP/reference	0.837	0.019
39DAP/reference	0.89408	0.17
41DAP/reference	0.90409	0.247
42DAP/reference	0.93916	0.275
43DAP/reference	0.88873	0.159
47DAP/reference	0.91378	0.293
52DAP/reference	1.13679	0.491
57DAP/reference	1.07433	0.147

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97449	0.639
17DAP/reference	1.03478	0.599
27DAP/reference	0.94674	0.317
39DAP/reference	0.9331	0.243
41DAP/reference	0.91377	0.081
42DAP/reference	0.98848	0.655
43DAP/reference	1.03431	0.761
47DAP/reference	1.04773	0.311
52DAP/reference	0.99635	0.713
57DAP/reference	1.06191	0.214

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93894	0.249
17DAP/reference	0.92964	0.243
27DAP/reference	0.95254	0.397
39DAP/reference	0.81997	0.04
41DAP/reference	0.86065	0.086
42DAP/reference	0.86465	0.287
43DAP/reference	0.87551	0.171
47DAP/reference	1.0883	0.147
52DAP/reference	0.95409	0.611
57DAP/reference	0.7493	0.025

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.04976	0.966
26DAP/20DAP	0.96618	1
34DAP/26DAP	1.00715	1
51DAP/34DAP	1.01672	0.925
52DAP/51DAP	0.98917	1
53DAP/52DAP	1.02803	0.938
55DAP/53DAP	0.99499	0.925
57DAP/55DAP	0.93014	0.757
62DAP/57DAP	1.08119	0.723
68DAP/62DAP	0.77822	0.505
68DAP/14DAP	0.86533	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.01534	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.99324
Mature Green Tomato/Ripe Tomato	0.79309	0.148
Immature Eggplant/Mature Eggplant	0.88193	0.493
Ripe Pepper/Ripe Tomato	0.22015	0.224
Mature Eggplant/Ripe Tomato	0.43158	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.96158	0.944
1-1-2/M82	1.0297	1
12-2/M82	0.95425	0.955
12-4/M82	0.87064	0.619
1-3/M82	0.944	0.378
2-1-1/M82	0.95151	0.92
2-1/M82	1.05969
2-6/M82	0.93906	1
3-2/M82	0.92491	0.752
4-1-1/M82	1.08424	1
4-1/M82	0.93688
4-3-2/M82	0.91963	1
4-3/M82	0.91969	0.72
5-3/M82	0.99817	1
6-2/M82	0.99565	1
6-3/M82	1.04071	1
7-1/M82	1.02064
7-2/M82	1.05164	0.385
9-3-2/M82	1.00131

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.7276
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.59661
IL12-4/WTpooled	0.79478	0.581
IL1-4/WTpooled	1.18328
WT/WTpooled	N/A	N/A

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	1.41131	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.03553	0.921
DC3000/delta hrp 6h	1.25789	1
DC3000/delta hrp 12h	0.9687	1
DC3000/delta hrp 24h	1.01274	0.797

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.29809
DC3000 delta B/DC3000 delta AB	1.27722	0.335

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.21373	1
Exp 36h	3.0491	0.409
Exp 60h	1.94108	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97322	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.12878	0.272
Var 12h NI row2-row1	0.90869	0.546
Var 36h I row2-row1	1.03389	1
Var 36h NI row2-row1	1.02152	1
Var 60h I row2-row1	1.17544	0.562
Var 60h NI row2-row1	1.18765	1
Time course 0hI-0hNI	1.11943	0.833
Time course 12hI-12hNI	1.01133	1
Time course 36hI-36hNI	0.85984	0.068
Time course 60hI-60hNI	1.01215	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)	0.79155	0.297
transgenic ySAMdc/azygous control (breaker)	1.0441	1
transgenic ySAMdc/azygous control (red)	1.61654	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97646	0.277

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.39147	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.93496	0.105
Manapal/WT (break)	2.29928	1
Manapal/WT (red)	1.7115	0.222