Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.1.6.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94341	0.652
27DAP/17DAP	0.82001	0.532
39DAP/27DAP	1.24992	0.85
41DAP/39DAP	1.17948	0.67
42DAP/41DAP	1.23877	0.886
43DAP/42DAP	1.22894	1
47DAP/43DAP	1.36461	0.856
52DAP/47DAP	1.09274	0.948
57DAP/52DAP	1.33024	0.993

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93063	0.379
17DAP/reference	1.0319	0.74
27DAP/reference	1.02412	0.953
39DAP/reference	1.01781	0.8
41DAP/reference	1.01809	1
42DAP/reference	0.91018	0.115
43DAP/reference	1.11612	0.287
47DAP/reference	1.00836	0.72
52DAP/reference	1.11422	0.388
57DAP/reference	1.20993	0.132

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82106	0.087
27DAP/17DAP	1.11267	0.751
39DAP/27DAP	1.00639	1
41DAP/39DAP	0.90101	0.599
42DAP/41DAP	1.00085	0.812
43DAP/42DAP	1.09241	0.413
47DAP/43DAP	1.08317	0.833
52DAP/47DAP	0.9563	0.857
57DAP/52DAP	0.99571	0.857
57DAP/7DAP	0.98478	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84119	0.296
17DAP/reference	0.83168	0.192
27DAP/reference	0.93587	0.325
39DAP/reference	1.26361	0.351
41DAP/reference	1.25009	0.475
42DAP/reference	0.94467	0.415
43DAP/reference	1.05719	0.873
47DAP/reference	0.96445	0.671
52DAP/reference	1.32405	0.105
57DAP/reference	1.11729	0.966

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83738	0.238
17DAP/reference	0.8949	0.201
27DAP/reference	0.90989	0.249
39DAP/reference	0.9812	0.497
41DAP/reference	0.81486	0.103
42DAP/reference	0.77272	0.012
43DAP/reference	1.09576	0.735
47DAP/reference	1.02914	1
52DAP/reference	0.82875	0.014
57DAP/reference	0.85586	0.243

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06798	0.616
17DAP/reference	1.01538	0.839
27DAP/reference	N/A	N/A
39DAP/reference	N/A	N/A
41DAP/reference	0.87599	0.032
42DAP/reference	0.99731	1
43DAP/reference	0.99441	0.685
47DAP/reference	0.99892	0.708
52DAP/reference	1.11519	0.674
57DAP/reference	0.97358	0.643

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89112	1
26DAP/20DAP	0.76068	0.512
34DAP/26DAP	1.07624	1
51DAP/34DAP	0.99858	0.917
52DAP/51DAP	1.01814	0.925
53DAP/52DAP	1.07455	0.697
55DAP/53DAP	1.14328	0.487
57DAP/55DAP	0.85427	0.499
62DAP/57DAP	1.63407
68DAP/62DAP	0.86513	0.747
68DAP/14DAP	0.84698

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.1458	0.172

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.99627	0.774
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.32039
Mature Eggplant/Ripe Tomato	2.77418	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.21464	1
1-1-2/M82	0.78891	1
12-2/M82	1.15532	1
12-4/M82	1.11566	1
1-3/M82	1.02782	1
2-1-1/M82	0.99423	1
2-1/M82	1.13716	1
2-6/M82	1.03525	0.329
3-2/M82	1.05803
4-1-1/M82	0.9954	1
4-1/M82	0.81537	1
4-3-2/M82	0.84798	1
4-3/M82	0.74648	0.72
5-3/M82	1.09095	1
6-2/M82	0.9422	1
6-3/M82	1.17888	1
7-1/M82	1.03339	1
7-2/M82	1.05349	1
9-3-2/M82	0.83515	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.13363	0.277
IL2-6/WTpooled	0.88441	1
IL7-5/WTpooled	1.0619	1
IL7-3/WTpooled	1.0871	1
IL12-4/WTpooled	1.30398	0.531
IL1-4/WTpooled	1.23302	1
WT/WTpooled	0.93623	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	0.90001	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.05722	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.05948	1
DC3000/delta hrp 24h	1.21735	0.296

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.16649	0.313
DC3000 delta B/DC3000 delta AB	1.15637	0.274

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.98293	1
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	0.96496	1
Var 0h	0.51319	1
Var 12h I row2-row1	1.08113	0.58
Var 12h NI row2-row1	0.91188	0.82
Var 36h I row2-row1	1.07467	1
Var 36h NI row2-row1	1.19549	1
Var 60h I row2-row1	0.91722	0.832
Var 60h NI row2-row1	0.94276	0.866
Time course 0hI-0hNI	0.93081	0.497
Time course 12hI-12hNI	1.00215	1
Time course 36hI-36hNI	1.519	0.005
Time course 60hI-60hNI	2.00089	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)	1.31449	0.482
transgenic ySAMdc/azygous control (breaker)	0.83142	0.251
transgenic ySAMdc/azygous control (red)	0.94003	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00502	0.854

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.39662	0.229

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.47721	0.14
Manapal/WT (break)	0.9142	1
Manapal/WT (red)	0.82884	0.315