Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.6.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14024	0.534
27DAP/17DAP	0.94648	0.923
39DAP/27DAP	0.92823	0.583
41DAP/39DAP	1.26431	0.284
42DAP/41DAP	1.0131	1
43DAP/42DAP	1.00721	1
47DAP/43DAP	1.14576	0.776
52DAP/47DAP	1.12826	0.787
57DAP/52DAP	1.10612	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94451	0.402
17DAP/reference	0.9853	0.737
27DAP/reference	1.04945	0.75
39DAP/reference	0.83587	0.064
41DAP/reference	0.82494	0.021
42DAP/reference	1.04161	0.869
43DAP/reference	0.96769	0.448
47DAP/reference	1.07917	0.666
52DAP/reference	1.06165	0.286
57DAP/reference	1.26216	0.025

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95106	0.363
27DAP/17DAP	0.98525	0.121
39DAP/27DAP	1.03809	0.672
41DAP/39DAP	1.02389	0.88
42DAP/41DAP	0.95801	0.726
43DAP/42DAP	0.9909	0.875
47DAP/43DAP	0.97652	0.833
52DAP/47DAP	0.94196	0.512
57DAP/52DAP	1.04252	0.846
57DAP/7DAP	0.92786	0.219

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98136	0.682
17DAP/reference	0.78578	0.013
27DAP/reference	0.76256	0.01
39DAP/reference	0.87464	0.021
41DAP/reference	0.92932	0.09
42DAP/reference	0.75847	0.01
43DAP/reference	0.79006	0.059
47DAP/reference	1.02865	1
52DAP/reference	0.79701	0.012
57DAP/reference	0.88346	0.118

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88071	0.214
17DAP/reference	0.73014	0.02
27DAP/reference	0.95548	0.423
39DAP/reference	1.14461	0.324
41DAP/reference	1.23161	0.013
42DAP/reference	0.90281	0.121
43DAP/reference	0.82646	0.135
47DAP/reference	0.92228	0.261
52DAP/reference	0.89225	0.066
57DAP/reference	0.73074	0.02

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82815	0.046
17DAP/reference	0.86102	0.143
27DAP/reference	0.81816	0.024
39DAP/reference	0.77145	0.012
41DAP/reference	0.90891	0.026
42DAP/reference	0.8827	0.22
43DAP/reference	1.05418	0.961
47DAP/reference	0.9257	0.335
52DAP/reference	0.73027	0.086
57DAP/reference	1.61141	0.023

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.49954	0.966
26DAP/20DAP	0.88948	0.317
34DAP/26DAP	1.0799	0.819
51DAP/34DAP	0.9863	0.883
52DAP/51DAP	0.95426	1
53DAP/52DAP	1.01572	0.99
55DAP/53DAP	0.89672	0.336
57DAP/55DAP	1.10777	0.543
62DAP/57DAP	1.1813	0.003
68DAP/62DAP	1.40782	0.431
68DAP/14DAP	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.88426	0.102

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.75025	0.058
Mature Green Tomato/Ripe Tomato	1.18909	0.095
Immature Eggplant/Mature Eggplant	0.49524	0.064
Ripe Pepper/Ripe Tomato	0.24047	0.224
Mature Eggplant/Ripe Tomato	1.01349	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.93289
1-1-2/M82	0.80818	0.754
12-2/M82	N/A	N/A
12-4/M82	1.00155	1
1-3/M82	1.05213
2-1-1/M82	1.02644
2-1/M82	N/A	N/A
2-6/M82	0.9238
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	0.8412
4-3-2/M82	0.93588	1
4-3/M82	N/A	N/A
5-3/M82	1.04723
6-2/M82	N/A	N/A
6-3/M82	0.99458
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87243	1
IL2-6/WTpooled	0.68028	0.348
IL7-5/WTpooled	1.2368	1
IL7-3/WTpooled	1.02193	1
IL12-4/WTpooled	0.94747	1
IL1-4/WTpooled	0.81268	0.562
WT/WTpooled	0.93716	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	0.9659	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.02298	1
DC3000/delta hrp 6h	0.98776	0.95
DC3000/delta hrp 12h	1.12021	1
DC3000/delta hrp 24h	1.00308	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02729	0.476
DC3000 delta B/DC3000 delta AB	1.07877	0.449

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.67546	0.328
Exp 36h	0.96329	0.943
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99199	1
Var 0h	1.25241	0.98
Var 12h I row2-row1	1.34241	0.235
Var 12h NI row2-row1	0.98127	0.906
Var 36h I row2-row1	1.05579	1
Var 36h NI row2-row1	0.85336	0.706
Var 60h I row2-row1	1.27748	0.562
Var 60h NI row2-row1	1.1744	0.904
Time course 0hI-0hNI	1.00404	1
Time course 12hI-12hNI	1.04632	0.72
Time course 36hI-36hNI	0.93538	0.169
Time course 60hI-60hNI	1.19672	0.013

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)	1.10932	0.511
transgenic ySAMdc/azygous control (breaker)	0.59301	0.173
transgenic ySAMdc/azygous control (red)	0.95312	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05331	0.115

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.93469	0.431

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.73559	1
Manapal/WT (break)	1.41434	1
Manapal/WT (red)	0.93441	0.863