Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.19.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.92444	0.578
27DAP/17DAP	1.07546	0.926
39DAP/27DAP	1.17427	1
41DAP/39DAP	0.74444	0.193
42DAP/41DAP	1.01913	1
43DAP/42DAP	1.06309	1
47DAP/43DAP	1.03204	0.972
52DAP/47DAP	0.87374	0.637
57DAP/52DAP	0.80167	0.622

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.50839	0.217
17DAP/reference	0.55773	0.016
27DAP/reference	0.61294	0.011
39DAP/reference	N/A	N/A
41DAP/reference	0.84335
42DAP/reference	0.92591	0.337
43DAP/reference	1.8142	0.646
47DAP/reference	0.97907	0.535
52DAP/reference	0.73894
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95847	0.629
27DAP/17DAP	1.03394	0.909
39DAP/27DAP	0.90812	0.388
41DAP/39DAP	0.98897	1
42DAP/41DAP	1.0179	1
43DAP/42DAP	0.93911	0.482
47DAP/43DAP	0.92144	0.447
52DAP/47DAP	0.81038	0.269
57DAP/52DAP	0.88497	0.25
57DAP/7DAP	0.80408	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.88531	0.296
17DAP/reference	0.88265	0.253
27DAP/reference	0.9544	0.375
39DAP/reference	0.9767	0.552
41DAP/reference	1.04392	1
42DAP/reference	0.89983	0.248
43DAP/reference	0.99325	0.555
47DAP/reference	1.02743	1
52DAP/reference	1.05238	0.526
57DAP/reference	0.93681	0.302

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79707	0.268
17DAP/reference	1.08652	1
27DAP/reference	0.80833	0.269
39DAP/reference	0.97359	0.404
41DAP/reference	0.98966	0.57
42DAP/reference	0.98398	0.534
43DAP/reference	0.9195	0.394
47DAP/reference	0.89068	0.277
52DAP/reference	0.87152	0.22
57DAP/reference	0.53553	0.011

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74139	0.055
17DAP/reference	0.78436	0.028
27DAP/reference	0.92122	0.49
39DAP/reference	1.22488	0.365
41DAP/reference	1.02303	1
42DAP/reference	0.97572	0.671
43DAP/reference	1.27676	0.164
47DAP/reference	0.84133	0.069
52DAP/reference	1.0713	0.837
57DAP/reference	0.99049	0.704

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	N/A	N/A
26DAP/20DAP	1.47974	0.099
34DAP/26DAP	1.0512	1
51DAP/34DAP	0.83208	0.317
52DAP/51DAP	1.04681	0.742
53DAP/52DAP	0.93067	0.712
55DAP/53DAP	1.10923	0.826
57DAP/55DAP	1.25092	0.898
62DAP/57DAP	10.3349	0.767
68DAP/62DAP	1.58612	0.178
68DAP/14DAP	1.19437	0.346

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.81002	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.92834	0.377
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.96108
Mature Eggplant/Ripe Tomato	0.54879	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.42158	0.5
1-1-2/M82	1.21899
12-2/M82	N/A	N/A
12-4/M82	0.92813	0.619
1-3/M82	0.99954	1
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.10332	0.594
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.0521
4-3-2/M82	1.49729
4-3/M82	1.38184
5-3/M82	1.04322	1
6-2/M82	0.9937
6-3/M82	0.86967
7-1/M82	0.81116
7-2/M82	N/A	N/A
9-3-2/M82	1.07615

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.80871	0.243
IL2-6/WTpooled	1.12977	0.584
IL7-5/WTpooled	1.30762	0.792
IL7-3/WTpooled	0.85247	0.418
IL12-4/WTpooled	1.07948	0.522
IL1-4/WTpooled	1.00676	1
WT/WTpooled	1.00601	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	1.16763	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0268	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.81647
DC3000/delta hrp 24h	0.99833	1

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.22679	0.06
DC3000 delta B/DC3000 delta AB	1.2897	0.167

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
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	N/A	N/A
Var 0h	1.02049
Var 12h I row2-row1	0.92789	0.627
Var 12h NI row2-row1	3.02828
Var 36h I row2-row1	0.93716	0.438
Var 36h NI row2-row1	0.89338
Var 60h I row2-row1	0.83147	0.832
Var 60h NI row2-row1	0.70033	0.63
Time course 0hI-0hNI	1.08838	0.833
Time course 12hI-12hNI	0.91586	0.506
Time course 36hI-36hNI	1.14951	0.355
Time course 60hI-60hNI	1.24061	0.047

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	1.08623	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	0.96007	0.229