Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.1.10.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.85178	0.19
27DAP/17DAP	1.6466	0.804
39DAP/27DAP	1.28204	0.635
41DAP/39DAP	1.12651	0.742
42DAP/41DAP	0.82905	0.774
43DAP/42DAP	0.96489	0.909
47DAP/43DAP	0.90926	0.634
52DAP/47DAP	1.27476	0.699
57DAP/52DAP	0.9231	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.30666	0.252
17DAP/reference	1.15635	0.33
27DAP/reference	1.11642	0.435
39DAP/reference	0.96975	0.624
41DAP/reference	1.0065	1
42DAP/reference	0.79583	0.041
43DAP/reference	0.97588	0.708
47DAP/reference	1.00074	0.636
52DAP/reference	0.71345	0.041
57DAP/reference	0.73286	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.77557	0.126
27DAP/17DAP	0.94863	0.854
39DAP/27DAP	1.02656	1
41DAP/39DAP	1.37385	0.157
42DAP/41DAP	0.85296	0.216
43DAP/42DAP	1.04954	1
47DAP/43DAP	1.05764	0.853
52DAP/47DAP	1.30234	0.372
57DAP/52DAP	1.1755	0.654
57DAP/7DAP	0.96998	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.46011	0.04
17DAP/reference	1.62146	0.012
27DAP/reference	1.51084	0.01
39DAP/reference	1.38364	0.016
41DAP/reference	1.38811	0.048
42DAP/reference	1.19414	0.174
43DAP/reference	1.75119	0.007
47DAP/reference	1.36921	0.266
52DAP/reference	1.5908	0.009
57DAP/reference	1.42386	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.31993	0.067
17DAP/reference	1.05192	0.708
27DAP/reference	1.0927	0.48
39DAP/reference	0.95154	0.469
41DAP/reference	0.80974	0.071
42DAP/reference	0.92709	0.189
43DAP/reference	1.16252	0.761
47DAP/reference	1.02666	0.89
52DAP/reference	0.9573	0.28
57DAP/reference	1.05742	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.47693	0.02
17DAP/reference	1.23005	0.321
27DAP/reference	1.68161	0.057
39DAP/reference	1.56137	0.052
41DAP/reference	1.3627	0.008
42DAP/reference	1.18474	0.433
43DAP/reference	1.15009	0.58
47DAP/reference	0.79955	0.041
52DAP/reference	1.43181	0.369
57DAP/reference	1.09658	0.693

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.93715	1
26DAP/20DAP	1.12213	1
34DAP/26DAP	1.75623	1
51DAP/34DAP	0.97109	0.791
52DAP/51DAP	1.21571	0.556
53DAP/52DAP	1.21294	0.91
55DAP/53DAP	1.25407	0.29
57DAP/55DAP	1.10482	0.969
62DAP/57DAP	1.00489	1
68DAP/62DAP	0.91529	0.81
68DAP/14DAP	0.44427	0.086

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.77618	0.072

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.12995	0.017
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.05753
Mature Eggplant/Ripe Tomato	0.15225

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.19511
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	1.1702
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	N/A	N/A
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	0.83769	0.364
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.85309
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.87486	0.243
IL2-6/WTpooled	0.94876	1
IL7-5/WTpooled	0.67792	1
IL7-3/WTpooled	1.26155	1
IL12-4/WTpooled	1.24318	1
IL1-4/WTpooled	0.88712	0.699
WT/WTpooled	1.16521	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	2.08703	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9225	0.941
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.96889	1
DC3000/delta hrp 24h	1.1142	0.76

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	1.11067	0.601

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	1.02817	1
Var 0h	0.93342	1
Var 12h I row2-row1	1.10258	0.613
Var 12h NI row2-row1	0.93032	0.627
Var 36h I row2-row1	0.99778	1
Var 36h NI row2-row1	1.09388	1
Var 60h I row2-row1	0.99191	1
Var 60h NI row2-row1	1.19721	0.904
Time course 0hI-0hNI	0.87395	0.415
Time course 12hI-12hNI	1.05772	0.779
Time course 36hI-36hNI	0.98961	0.654
Time course 60hI-60hNI	0.93779	0.646

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)	0.49089	0.49
transgenic ySAMdc/azygous control (red)	1.25673	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94401	0.104

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.2754	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05789	1
Manapal/WT (break)	9.64978	0.381
Manapal/WT (red)	N/A	N/A