Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.20.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06531	0.947
27DAP/17DAP	1.16663	0.842
39DAP/27DAP	0.92734	0.641
41DAP/39DAP	1.35825	0.372
42DAP/41DAP	1.03503	1
43DAP/42DAP	1.18326	0.873
47DAP/43DAP	0.958	0.699
52DAP/47DAP	1.02702	0.903
57DAP/52DAP	0.94127	0.932

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87507	0.121
17DAP/reference	0.99921	1
27DAP/reference	1.54324	0.468
39DAP/reference	1.02399	0.514
41DAP/reference	0.83503	0.267
42DAP/reference	0.93261	0.169
43DAP/reference	0.72068	0.377
47DAP/reference	0.85169	0.3
52DAP/reference	0.90119	0.33
57DAP/reference	0.55534	0.01

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97636	0.716
27DAP/17DAP	0.97478	0.782
39DAP/27DAP	1.02868	0.698
41DAP/39DAP	1.09417	0.497
42DAP/41DAP	0.9961	0.91
43DAP/42DAP	1.04704	0.324
47DAP/43DAP	1.0369	0.88
52DAP/47DAP	1.01973	0.939
57DAP/52DAP	1.00476	1
57DAP/7DAP	1.0018	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8721	0.06
17DAP/reference	0.87137	0.014
27DAP/reference	0.7983	0.01
39DAP/reference	0.88719	0.025
41DAP/reference	0.96533	0.284
42DAP/reference	0.88512	0.03
43DAP/reference	0.81418	0.015
47DAP/reference	0.91237	0.168
52DAP/reference	0.80888	0.011
57DAP/reference	0.77641	0.019

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97668	0.688
17DAP/reference	0.90554	0.08
27DAP/reference	0.80486	0.134
39DAP/reference	2.75016	0.62
41DAP/reference	0.71191	0.083
42DAP/reference	1.29711	0.826
43DAP/reference	0.7895	0.243
47DAP/reference	1.02258
52DAP/reference	0.9445	0.078
57DAP/reference	0.98871	0.649

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.18895	0.185
17DAP/reference	0.958	0.407
27DAP/reference	0.91201	0.097
39DAP/reference	0.87788	0.008
41DAP/reference	0.84605	0.026
42DAP/reference	0.754	0.016
43DAP/reference	0.83009	0.018
47DAP/reference	0.94536	0.296
52DAP/reference	0.82321	0.174
57DAP/reference	0.88683	0.171

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99214	1
26DAP/20DAP	0.97197	1
34DAP/26DAP	0.89636	0.693
51DAP/34DAP	1.17318	0.089
52DAP/51DAP	0.96937	1
53DAP/52DAP	0.94566	0.824
55DAP/53DAP	0.91124	0.043
57DAP/55DAP	1.00518	0.97
62DAP/57DAP	1.12935	0.622
68DAP/62DAP	1.31474	0.323
68DAP/14DAP	0.88339	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.10002	0.087

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.0364	0.037
Mature Green Tomato/Ripe Tomato	0.79919	0.119
Immature Eggplant/Mature Eggplant	17.0296	0.05
Ripe Pepper/Ripe Tomato	7.12119	0.256
Mature Eggplant/Ripe Tomato	1.16159	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.95604	0.944
1-1-2/M82	0.95928	1
12-2/M82	1.07804	1
12-4/M82	0.9142	1
1-3/M82	1.14056	0.277
2-1-1/M82	1.17347
2-1/M82	N/A	N/A
2-6/M82	1.13188	1
3-2/M82	0.90646	0.752
4-1-1/M82	1.20477	0.938
4-1/M82	1.11733
4-3-2/M82	1.15503	0.508
4-3/M82	1.25249	1
5-3/M82	1.0092	1
6-2/M82	0.95389	1
6-3/M82	0.91304	1
7-1/M82	1.207
7-2/M82	1.33294	0.318
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.06904	0.277
IL2-6/WTpooled	1.17392	0.531
IL7-5/WTpooled	1.87083	0.75
IL7-3/WTpooled	1.04445
IL12-4/WTpooled	2.09055
IL1-4/WTpooled	0.91354	0.834
WT/WTpooled	0.92744	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	1.42819	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11901	0.692
DC3000/delta hrp 6h	0.93	0.95
DC3000/delta hrp 12h	0.9362	1
DC3000/delta hrp 24h	1.06318	0.633

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.33375	0.042
DC3000 delta B/DC3000 delta AB	1.24539	0.151

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.13061	1
Exp 36h	1.73497	0.693
Exp 60h	1.73699	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.93918	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.96685	0.948
Var 12h NI row2-row1	1.05038	1
Var 36h I row2-row1	1.00056	1
Var 36h NI row2-row1	0.90719	0.706
Var 60h I row2-row1	0.71735	0.285
Var 60h NI row2-row1	0.99107	1
Time course 0hI-0hNI	1.09484	0.413
Time course 12hI-12hNI	1.13665	0.204
Time course 36hI-36hNI	1.79287	0.005
Time course 60hI-60hNI	8.32244	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)	0.79477	0.251
transgenic ySAMdc/azygous control (breaker)	0.46904	0.173
transgenic ySAMdc/azygous control (red)	1.15823	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00132	0.958

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.51208	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	9.08596	0.093
Manapal/WT (break)	3.12059	0.183
Manapal/WT (red)	5.43501	0.15