Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.10.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.78242	0.138
27DAP/17DAP	1.35123	0.738
39DAP/27DAP	0.89269	0.529
41DAP/39DAP	0.87256	0.469
42DAP/41DAP	1.14937	0.751
43DAP/42DAP	1.0197	1
47DAP/43DAP	1.82111	0.268
52DAP/47DAP	0.93747	0.677
57DAP/52DAP	0.89549	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86704	0.159
17DAP/reference	0.79809	0.12
27DAP/reference	0.94651	0.497
39DAP/reference	0.81802	0.076
41DAP/reference	0.71615	0.018
42DAP/reference	0.70698	0.001
43DAP/reference	0.96848	0.653
47DAP/reference	1.0662	0.558
52DAP/reference	0.83132	0.143
57DAP/reference	0.95119	0.324

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.88944	0.044
27DAP/17DAP	0.6489	0.121
39DAP/27DAP	0.99157	0.964
41DAP/39DAP	0.84855	0.547
42DAP/41DAP	1.25727	0.172
43DAP/42DAP	1.1013	0.176
47DAP/43DAP	0.8807	0.153
52DAP/47DAP	0.74412	0.108
57DAP/52DAP	0.85713	0.264
57DAP/7DAP	1.06644	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26209	0.181
17DAP/reference	1.11405	0.18
27DAP/reference	0.96945	0.402
39DAP/reference	1.01285	0.745
41DAP/reference	0.86835	0.247
42DAP/reference	1.05226	0.889
43DAP/reference	1.06406	0.603
47DAP/reference	0.87439	0.222
52DAP/reference	0.87499	0.15
57DAP/reference	0.90904	0.128

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92671	0.503
17DAP/reference	0.73254	0.004
27DAP/reference	0.81428	0.048
39DAP/reference	0.79697	0.027
41DAP/reference	0.80103	0.052
42DAP/reference	0.7542	0.013
43DAP/reference	0.60653	0.002
47DAP/reference	0.75088	0.015
52DAP/reference	0.59815	0.004
57DAP/reference	0.57339	0.003

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30777	0.149
17DAP/reference	1.06537	0.551
27DAP/reference	1.05942	0.596
39DAP/reference	0.97599	0.544
41DAP/reference	0.85844	0.185
42DAP/reference	1.09054	0.743
43DAP/reference	0.91652	0.398
47DAP/reference	0.7721	0.072
52DAP/reference	0.90258	0.395
57DAP/reference	1.02183	0.828

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89442	1
26DAP/20DAP	0.8799	0.512
34DAP/26DAP	0.99693	1
51DAP/34DAP	1.02946	0.936
52DAP/51DAP	0.69721	0.151
53DAP/52DAP	1.05499	0.983
55DAP/53DAP	0.77782	0.218
57DAP/55DAP	1.10324	0.149
62DAP/57DAP	1.82268	0.004
68DAP/62DAP	1.08676	1
68DAP/14DAP	0.64921	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.2119	0.122

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.43692	0.089
Mature Green Tomato/Ripe Tomato	1.23818	0.299
Immature Eggplant/Mature Eggplant	1.3163	0.053
Ripe Pepper/Ripe Tomato	0.52111	0.224
Mature Eggplant/Ripe Tomato	0.7528	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.84073	0.536
1-1-2/M82	1.36561	1
12-2/M82	0.87828	0.661
12-4/M82	1.48202	1
1-3/M82	1.82154	0.479
2-1-1/M82	1.07908	1
2-1/M82	0.99722	1
2-6/M82	1.78622	0.329
3-2/M82	1.16448
4-1-1/M82	1.14932	1
4-1/M82	1.4624	0.853
4-3-2/M82	1.55117	0.262
4-3/M82	2.34612	0.268
5-3/M82	0.69736	0.395
6-2/M82	1.72486	0.219
6-3/M82	1.00276	1
7-1/M82	0.97489	1
7-2/M82	1.33949	0.385
9-3-2/M82	1.91039	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.82929	0.243
IL2-6/WTpooled	0.92842	0.473
IL7-5/WTpooled	1.00622	1
IL7-3/WTpooled	0.81192	0.418
IL12-4/WTpooled	0.90015	0.71
IL1-4/WTpooled	0.99571	1
WT/WTpooled	0.99834	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	1.0911	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9208
DC3000/delta hrp 6h	1.04954	0.95
DC3000/delta hrp 12h	1.17045	1
DC3000/delta hrp 24h	0.66203	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.50982	0.025
DC3000 delta B/DC3000 delta AB	0.44758	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.05337	1
Exp 36h	0.75436	0.589
Exp 60h	0.82215	0.586

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

hybridization	ratio	FDR (corrected p value)
self-self	1.0302	1
Var 0h	1.07719	0.936
Var 12h I row2-row1	0.79122	0.39
Var 12h NI row2-row1	0.918	0.488
Var 36h I row2-row1	0.94082	1
Var 36h NI row2-row1	1.15	0.482
Var 60h I row2-row1	1.05232	0.543
Var 60h NI row2-row1	0.96897	1
Time course 0hI-0hNI	1.00646	1
Time course 12hI-12hNI	1.0202	0.892
Time course 36hI-36hNI	0.9438	0.19
Time course 60hI-60hNI	0.20808	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)	0.8507	0.348
transgenic ySAMdc/azygous control (breaker)	0.97971	1
transgenic ySAMdc/azygous control (red)	0.97675	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.02038	1

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.45079	0.231

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.42264	0.088
Manapal/WT (break)	1.51033	0.381
Manapal/WT (red)	1.39812	0.137