Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.3.8.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27996	0.414
27DAP/17DAP	1.05563	0.881
39DAP/27DAP	0.73697	0.443
41DAP/39DAP	1.07196	0.696
42DAP/41DAP	1.2451	0.813
43DAP/42DAP	1.08013	1
47DAP/43DAP	1.06876	0.856
52DAP/47DAP	1.18068	0.67
57DAP/52DAP	1.04717	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85472	0.103
17DAP/reference	1.04784	0.21
27DAP/reference	0.98993	0.741
39DAP/reference	0.99781	0.991
41DAP/reference	0.95085	0.434
42DAP/reference	0.8613	0.005
43DAP/reference	0.92851	0.316
47DAP/reference	0.91098	0.008
52DAP/reference	0.76373	0.043
57DAP/reference	0.76763	0.059

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.07203	0.473
27DAP/17DAP	1.21556	0.435
39DAP/27DAP	1.03247	1
41DAP/39DAP	1.03325	1
42DAP/41DAP	1.01361	1
43DAP/42DAP	1.05036	0.664
47DAP/43DAP	0.99725	0.989
52DAP/47DAP	0.91326	0.603
57DAP/52DAP	0.93958	0.608
57DAP/7DAP	1.1112	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8498	0.104
17DAP/reference	0.84331	0.013
27DAP/reference	0.85033	0.02
39DAP/reference	0.90599	0.056
41DAP/reference	0.89148	0.017
42DAP/reference	0.76209	0.014
43DAP/reference	0.81047	0.025
47DAP/reference	0.87494	0.079
52DAP/reference	0.79414	0.012
57DAP/reference	0.80981	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9945	0.884
17DAP/reference	0.96597	0.474
27DAP/reference	0.85479	0.167
39DAP/reference	0.98405	0.539
41DAP/reference	0.79749	0.016
42DAP/reference	0.82049	0.061
43DAP/reference	0.88211	0.147
47DAP/reference	0.89723	0.016
52DAP/reference	0.88076	0.055
57DAP/reference	1.06304	0.724

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82698	0.074
17DAP/reference	0.91415	0.342
27DAP/reference	0.86	0.036
39DAP/reference	0.83142	0.014
41DAP/reference	0.92095	0.264
42DAP/reference	0.7123	0.015
43DAP/reference	0.82656	0.071
47DAP/reference	0.88456	0.199
52DAP/reference	0.76673	0.166
57DAP/reference	0.60107	0.024

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05265	0.966
26DAP/20DAP	1.60889	0.175
34DAP/26DAP	1.08437	1
51DAP/34DAP	2.18594	0.032
52DAP/51DAP	0.85424	1
53DAP/52DAP	0.90482	0.604
55DAP/53DAP	0.57516	0.016
57DAP/55DAP	1.27316	0.559
62DAP/57DAP	1.11202	0.868
68DAP/62DAP	0.98445	0.863
68DAP/14DAP	0.6753	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.18188	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.83399	0.318
Mature Green Tomato/Ripe Tomato	0.48932	0.014
Immature Eggplant/Mature Eggplant	1.37294	0.054
Ripe Pepper/Ripe Tomato	1.27869	1
Mature Eggplant/Ripe Tomato	0.97021	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93138	0.613
1-1-2/M82	0.96545
12-2/M82	0.91504
12-4/M82	1.12763
1-3/M82	1.11392
2-1-1/M82	1.36532
2-1/M82	N/A	N/A
2-6/M82	1.15664	0.594
3-2/M82	1.11685
4-1-1/M82	0.89367	1
4-1/M82	1.1169	1
4-3-2/M82	0.79752	0.487
4-3/M82	0.86446
5-3/M82	1.00655	1
6-2/M82	0.95572
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.95813
9-3-2/M82	0.97627	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.48099
IL2-6/WTpooled	0.99159	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.0012	1
IL12-4/WTpooled	0.86001	0.71
IL1-4/WTpooled	1.23569	1
WT/WTpooled	0.80051	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	1.03107	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97843	1
DC3000/delta hrp 6h	1.12523	1
DC3000/delta hrp 12h	1.24361	1
DC3000/delta hrp 24h	1.02743	0.728

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	1.03481	0.636

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05826	1
Exp 36h	1.29928	0.693
Exp 60h	1.30091	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05103	1
Var 0h	1.23979	0.594
Var 12h I row2-row1	1.05651	0.654
Var 12h NI row2-row1	1.00685	1
Var 36h I row2-row1	1.09827	0.601
Var 36h NI row2-row1	0.9533	0.478
Var 60h I row2-row1	0.88429	0.293
Var 60h NI row2-row1	0.90711	0.69
Time course 0hI-0hNI	0.99341	1
Time course 12hI-12hNI	0.94564	0.464
Time course 36hI-36hNI	0.9532	0.215
Time course 60hI-60hNI	1.46711	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)	1.04383	0.408
transgenic ySAMdc/azygous control (breaker)	1.1535	0.248
transgenic ySAMdc/azygous control (red)	0.98687	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01314	0.656

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00404	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98445	1
Manapal/WT (break)	1.26564	0.183
Manapal/WT (red)	1.2575	0.413