Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.3.8.9

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.08532	0.876
27DAP/17DAP	0.82782	0.517
39DAP/27DAP	1.247	0.583
41DAP/39DAP	0.85474	0.501
42DAP/41DAP	0.87989	1
43DAP/42DAP	1.08409	1
47DAP/43DAP	0.82354	0.424
52DAP/47DAP	1.05269	0.989
57DAP/52DAP	0.99496	0.974

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80822	0.052
17DAP/reference	0.99843	0.957
27DAP/reference	1.03041	0.559
39DAP/reference	0.86252	0.023
41DAP/reference	0.85994	0.154
42DAP/reference	0.89263	0.03
43DAP/reference	0.94929	0.41
47DAP/reference	0.89296	0.077
52DAP/reference	0.8956	0.128
57DAP/reference	0.98257	0.58

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.0035	1
27DAP/17DAP	0.90871	0.39
39DAP/27DAP	0.84487	0.134
41DAP/39DAP	0.99916	1
42DAP/41DAP	1.10587	0.365
43DAP/42DAP	1.11253	0.212
47DAP/43DAP	0.91678	0.637
52DAP/47DAP	1.02019	0.987
57DAP/52DAP	1.02981	0.905
57DAP/7DAP	0.64701	0.186

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97451	0.495
17DAP/reference	1.02106	1
27DAP/reference	1.08592	0.03
39DAP/reference	0.98502	0.474
41DAP/reference	0.80594	0.116
42DAP/reference	0.96084	0.415
43DAP/reference	0.8189	0.072
47DAP/reference	0.86228	0.057
52DAP/reference	0.74894	0.009
57DAP/reference	0.74207	0.036

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93053	0.329
17DAP/reference	0.82004	0.034
27DAP/reference	0.88795	0.257
39DAP/reference	0.81914	0.05
41DAP/reference	0.86039	0.059
42DAP/reference	0.82558	0.039
43DAP/reference	0.80069	0.018
47DAP/reference	0.89399	0.043
52DAP/reference	0.87691	0.01
57DAP/reference	0.84432	0.079

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8881	0.074
17DAP/reference	0.86182	0.186
27DAP/reference	0.86808	0.056
39DAP/reference	0.85262	0.022
41DAP/reference	0.82061	0.04
42DAP/reference	0.82542	0.087
43DAP/reference	0.84106	0.054
47DAP/reference	0.89551	0.084
52DAP/reference	1.05828	0.952
57DAP/reference	0.71719	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96335	1
26DAP/20DAP	1.06185	0.974
34DAP/26DAP	0.9429	0.898
51DAP/34DAP	1.12773	0.511
52DAP/51DAP	1.03586	0.742
53DAP/52DAP	1.1336	0.697
55DAP/53DAP	1.11997	0.861
57DAP/55DAP	1.17952	0.584
62DAP/57DAP	1.09718	0.723
68DAP/62DAP	0.95254	0.81
68DAP/14DAP	1.27776	0.146

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.10041	0.439

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.17841	0.666
Mature Green Tomato/Ripe Tomato	1.47403	0.053
Immature Eggplant/Mature Eggplant	1.00176	1
Ripe Pepper/Ripe Tomato	3.47615	1
Mature Eggplant/Ripe Tomato	1.57469	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.11112
12-2/M82	N/A	N/A
12-4/M82	0.90327	1
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.75026
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.97118	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	1.20024
9-3-2/M82	1.19957

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.16325
IL2-6/WTpooled	1.20523	0.659
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.1539	1
IL12-4/WTpooled	0.69442	0.566
IL1-4/WTpooled	1.07749
WT/WTpooled	0.88174	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	1.0039	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.22998	0.921
DC3000/delta hrp 6h	1.01714	0.95
DC3000/delta hrp 12h	1.08999	1
DC3000/delta hrp 24h	0.84798	0.174

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.88531	0.92
DC3000 delta B/DC3000 delta AB	0.97431	0.849

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90818	1
Exp 36h	0.9227	0.82
Exp 60h	1.11718	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.02432	1
Var 0h	1.019	1
Var 12h I row2-row1	0.79412	0.318
Var 12h NI row2-row1	0.99587	1
Var 36h I row2-row1	0.84389	0.805
Var 36h NI row2-row1	1.16347	1
Var 60h I row2-row1	1.03841	1
Var 60h NI row2-row1	0.99033	1
Time course 0hI-0hNI	0.93195	0.516
Time course 12hI-12hNI	1.00214	1
Time course 36hI-36hNI	0.88648	0.034
Time course 60hI-60hNI	0.36811	0.006

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)	1.08605	0.297
transgenic ySAMdc/azygous control (breaker)	0.59378	0.139
transgenic ySAMdc/azygous control (red)	0.9611	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03599	0.223

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.8177	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0309	1
Manapal/WT (break)	1.04895	1
Manapal/WT (red)	0.82179	0.181