Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.11.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98489	0.839
27DAP/17DAP	1.02387	1
39DAP/27DAP	0.91307	0.544
41DAP/39DAP	1.16181	0.612
42DAP/41DAP	1.00656	1
43DAP/42DAP	0.96577	0.909
47DAP/43DAP	0.97982	0.876
52DAP/47DAP	1.16882	0.608
57DAP/52DAP	1.0546	0.972

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98682	0.616
17DAP/reference	0.99666	0.957
27DAP/reference	1.0434	0.291
39DAP/reference	0.93568	0.475
41DAP/reference	0.98071	0.667
42DAP/reference	0.97328	0.211
43DAP/reference	1.00112	0.942
47DAP/reference	0.98937	0.503
52DAP/reference	0.92142	0.31
57DAP/reference	1.10667	0.068

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98882	0.782
27DAP/17DAP	1.03405	0.885
39DAP/27DAP	1.03857	0.646
41DAP/39DAP	1.02001	0.895
42DAP/41DAP	1.00615	1
43DAP/42DAP	1.00605	0.788
47DAP/43DAP	1.02933	0.772
52DAP/47DAP	0.94437	0.565
57DAP/52DAP	0.96493	0.632
57DAP/7DAP	1.00051	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89487	0.246
17DAP/reference	0.8804	0.094
27DAP/reference	1.00359	0.8
39DAP/reference	0.84851	0.095
41DAP/reference	0.86037	0.153
42DAP/reference	0.78118	0.04
43DAP/reference	0.94535	0.292
47DAP/reference	0.93217	0.293
52DAP/reference	0.90545	0.137
57DAP/reference	0.96968	0.426

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96059	0.487
17DAP/reference	0.93428	0.034
27DAP/reference	0.86001	0.074
39DAP/reference	0.93202	0.11
41DAP/reference	0.86584	0.057
42DAP/reference	0.93887	0.15
43DAP/reference	0.90961	0.14
47DAP/reference	1.0163	0.621
52DAP/reference	0.93528	0.051
57DAP/reference	1.01315	0.93

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.10225	0.303
17DAP/reference	1.10541	0.522
27DAP/reference	1.03363	0.777
39DAP/reference	0.96007	0.43
41DAP/reference	0.96661	0.512
42DAP/reference	0.86716	0.028
43DAP/reference	0.98702	0.639
47DAP/reference	0.96771	0.335
52DAP/reference	1.24488	0.79
57DAP/reference	0.83974	0.044

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99524	1
26DAP/20DAP	1.14613	0.366
34DAP/26DAP	0.95553	0.803
51DAP/34DAP	1.04018	0.637
52DAP/51DAP	0.96529	1
53DAP/52DAP	1.05636	0.819
55DAP/53DAP	1.09242	0.771
57DAP/55DAP	0.95903	0.831
62DAP/57DAP	0.96791	0.871
68DAP/62DAP	1.27502	0.16
68DAP/14DAP	0.86419	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09897	0.369

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.85968	0.481
Mature Green Tomato/Ripe Tomato	1.15783	0.632
Immature Eggplant/Mature Eggplant	1.32045	0.142
Ripe Pepper/Ripe Tomato	0.59573	0.224
Mature Eggplant/Ripe Tomato	0.84065	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.04572
1-1-2/M82	0.96649	1
12-2/M82	1.17781	1
12-4/M82	1.10438	1
1-3/M82	0.84858	0.501
2-1-1/M82	1.52138
2-1/M82	1.41967
2-6/M82	1.04018	0.695
3-2/M82	0.89272	0.752
4-1-1/M82	0.96191	1
4-1/M82	0.92302
4-3-2/M82	0.94017	1
4-3/M82	1.16328	1
5-3/M82	1.00605	1
6-2/M82	1.06975	1
6-3/M82	N/A	N/A
7-1/M82	0.93655	1
7-2/M82	1.06514	0.385
9-3-2/M82	0.94174	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95886
IL2-6/WTpooled	0.94182	1
IL7-5/WTpooled	0.39598
IL7-3/WTpooled	1.02943	1
IL12-4/WTpooled	1.12822	0.673
IL1-4/WTpooled	1.02107	1
WT/WTpooled	1.02777	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	1.19189	0.309

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04204	0.921
DC3000/delta hrp 6h	1.0519	1
DC3000/delta hrp 12h	0.93754	1
DC3000/delta hrp 24h	1.17215	0.347

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.17406	0.043
DC3000 delta B/DC3000 delta AB	1.15806	0.215

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.01786	1
Exp 36h	1.09432	1
Exp 60h	1.13538	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98811	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.12335	0.58
Var 12h NI row2-row1	1.05246	1
Var 36h I row2-row1	1.06154	1
Var 36h NI row2-row1	0.86756	0.61
Var 60h I row2-row1	0.88775	0.582
Var 60h NI row2-row1	0.89251	0.302
Time course 0hI-0hNI	0.92416	0.472
Time course 12hI-12hNI	1.07565	0.233
Time course 36hI-36hNI	1.32716	0.028
Time course 60hI-60hNI	1.92978	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)	0.94268	0.454
transgenic ySAMdc/azygous control (breaker)	1.15043	0.248
transgenic ySAMdc/azygous control (red)	1.32622	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.96876	0.048

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87373	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94416	1
Manapal/WT (break)	0.90349	1
Manapal/WT (red)	0.8793	0.36