Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.3.2.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.78726	0.364
27DAP/17DAP	0.93885	0.863
39DAP/27DAP	1.19501	0.622
41DAP/39DAP	1.11301	0.511
42DAP/41DAP	0.88717	1
43DAP/42DAP	0.97069	0.914
47DAP/43DAP	1.12261	0.825
52DAP/47DAP	1.02793	0.873
57DAP/52DAP	1.1658	0.95

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94363	0.402
17DAP/reference	0.75257	0.01
27DAP/reference	0.89819	0.286
39DAP/reference	0.72348	0.013
41DAP/reference	0.65531	0.009
42DAP/reference	0.75209	0.033
43DAP/reference	0.8108	0.084
47DAP/reference	0.77478	0.035
52DAP/reference	0.91546	0.258
57DAP/reference	1.22253	0.014

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.8872	0.336
27DAP/17DAP	1.06513	0.932
39DAP/27DAP	0.97972	0.844
41DAP/39DAP	1.01819	0.997
42DAP/41DAP	1.13607	0.708
43DAP/42DAP	0.77833	0.093
47DAP/43DAP	0.93465	0.373
52DAP/47DAP	1.00867	0.975
57DAP/52DAP	1.01566	1
57DAP/7DAP	0.84545	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.75031	0.041
17DAP/reference	1.67223	0.012
27DAP/reference	1.62974	0.01
39DAP/reference	1.27181	0.086
41DAP/reference	1.36481	0.069
42DAP/reference	1.44918	0.018
43DAP/reference	1.46593	0.148
47DAP/reference	1.30213	0.161
52DAP/reference	1.85717	0.012
57DAP/reference	1.63468	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93497	0.412
17DAP/reference	0.63084	0.004
27DAP/reference	0.81367	0.115
39DAP/reference	0.71623	0.023
41DAP/reference	0.92357	0.183
42DAP/reference	0.86177	0.135
43DAP/reference	0.80862	0.105
47DAP/reference	0.79939	0.016
52DAP/reference	0.68745	0.004
57DAP/reference	0.56234	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.48696	0.09
17DAP/reference	1.09197	0.804
27DAP/reference	1.48533	0.024
39DAP/reference	1.31947	0.157
41DAP/reference	1.05341	0.84
42DAP/reference	1.31009	0.251
43DAP/reference	1.09183	0.894
47DAP/reference	0.6906	0.005
52DAP/reference	1.15992	0.965
57DAP/reference	1.17814	0.192

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96196	1
26DAP/20DAP	1.34177	0.275
34DAP/26DAP	0.95508	0.909
51DAP/34DAP	1.12819	0.719
52DAP/51DAP	1.0171	0.842
53DAP/52DAP	1.48629	0.144
55DAP/53DAP	0.89727	0.14
57DAP/55DAP	1.10438	0.975
62DAP/57DAP	1.09382	1
68DAP/62DAP	1.68158	0.058
68DAP/14DAP	2.01138	0.028

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.74448	0.092

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.9832	0.058
Mature Green Tomato/Ripe Tomato	1.24865	0.086
Immature Eggplant/Mature Eggplant	0.81086	0.223
Ripe Pepper/Ripe Tomato	3.28148	0.258
Mature Eggplant/Ripe Tomato	4.48036	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91109	0.944
1-1-2/M82	1.23887	1
12-2/M82	0.72126	0.727
12-4/M82	0.70343	0.33
1-3/M82	N/A	N/A
2-1-1/M82	0.9385	0.683
2-1/M82	0.86869	0.519
2-6/M82	1.20859	0.452
3-2/M82	1.02153
4-1-1/M82	1.51344	1
4-1/M82	1.36605	1
4-3-2/M82	1.089	1
4-3/M82	1.30652	1
5-3/M82	1.10074	1
6-2/M82	1.58718
6-3/M82	1.04329	1
7-1/M82	0.96858	1
7-2/M82	1.50697	0.302
9-3-2/M82	1.10278	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.84534	1
IL2-6/WTpooled	0.75416
IL7-5/WTpooled	1.26493
IL7-3/WTpooled	0.79445
IL12-4/WTpooled	0.82798	0.71
IL1-4/WTpooled	1.10067	1
WT/WTpooled	0.97467	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	1.05356	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91833	0.664
DC3000/delta hrp 6h	0.97707	0.95
DC3000/delta hrp 12h	1.16352	1
DC3000/delta hrp 24h	0.76698	0.043

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.10537	0.229
DC3000 delta B/DC3000 delta AB	1.12187	0.403

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.20216	1
Exp 36h	1.84195	1
Exp 60h	1.27805	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04019	1
Var 0h	1.06021	0.98
Var 12h I row2-row1	1.30199	0.613
Var 12h NI row2-row1	1.14221	0.649
Var 36h I row2-row1	0.97734	1
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.01456	1
Time course 0hI-0hNI	1.10797	0.537
Time course 12hI-12hNI	0.97308	0.87
Time course 36hI-36hNI	0.99422	0.768
Time course 60hI-60hNI	0.70504	0.015

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)	1.17697	0.408
transgenic ySAMdc/azygous control (breaker)	1.16838	0.248
transgenic ySAMdc/azygous control (red)	1.24043	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97637	0.609

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.70238	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.43397	0.14
Manapal/WT (break)	1.20534	0.381
Manapal/WT (red)	1.41437	0.222