Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.2.19.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.55951	0.014
27DAP/17DAP	0.98536	0.994
39DAP/27DAP	1.21213	0.725
41DAP/39DAP	1.03586	0.962
42DAP/41DAP	0.96766	1
43DAP/42DAP	1.03473	0.937
47DAP/43DAP	1.20945	0.463
52DAP/47DAP	1.03308	0.959
57DAP/52DAP	0.97235	0.957

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06496	0.735
17DAP/reference	1.14129	0.457
27DAP/reference	1.07026	0.684
39DAP/reference	1.03637	0.991
41DAP/reference	0.94408	0.542
42DAP/reference	1.09984	0.366
43DAP/reference	0.88322	0.247
47DAP/reference	0.91472	0.174
52DAP/reference	1.01336	0.668
57DAP/reference	1.15499	0.321

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.59365	0.038
27DAP/17DAP	1.09468	0.621
39DAP/27DAP	1.05532	0.779
41DAP/39DAP	1.06149	1
42DAP/41DAP	1.19066	0.401
43DAP/42DAP	1.2676	0.014
47DAP/43DAP	1.06354	0.892
52DAP/47DAP	0.87279	0.439
57DAP/52DAP	0.79135	0.467
57DAP/7DAP	0.83196	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75426	0.054
17DAP/reference	0.84817	0.072
27DAP/reference	0.78395	0.014
39DAP/reference	0.79733	0.013
41DAP/reference	0.85922	0.094
42DAP/reference	0.78424	0.016
43DAP/reference	0.62467	0.011
47DAP/reference	0.69195	0.079
52DAP/reference	0.73563	0.031
57DAP/reference	0.79692	0.017

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07314	0.67
17DAP/reference	0.96988	0.642
27DAP/reference	1.00032	0.598
39DAP/reference	0.90779	0.33
41DAP/reference	0.88845	0.237
42DAP/reference	0.86008	0.135
43DAP/reference	0.99405	0.646
47DAP/reference	1.00583	0.749
52DAP/reference	1.25693	0.027
57DAP/reference	0.9842	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86659	0.135
17DAP/reference	1.10367	0.612
27DAP/reference	0.6567	0.031
39DAP/reference	0.6983	0.018
41DAP/reference	0.80843	0.132
42DAP/reference	0.76992	0.108
43DAP/reference	0.79142	0.15
47DAP/reference	1.02075	0.966
52DAP/reference	0.74902	0.158
57DAP/reference	0.82178	0.105

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.15829	0.966
26DAP/20DAP	0.94442	1
34DAP/26DAP	1.31784	0.819
51DAP/34DAP	0.85694	0.376
52DAP/51DAP	1.10451	0.358
53DAP/52DAP	0.9422	0.817
55DAP/53DAP	1.47835	0.547
57DAP/55DAP	1.25026	0.626
62DAP/57DAP	1.05194	1
68DAP/62DAP	0.96876	0.787
68DAP/14DAP	1.20969	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.46852	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.54448	0.194
Mature Green Tomato/Ripe Tomato	1.18632	0.437
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.82985	1
Mature Eggplant/Ripe Tomato	0.31956	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.0863	0.877
1-1-2/M82	1.00859	1
12-2/M82	0.67916
12-4/M82	1.09213	0.611
1-3/M82	0.93679	0.501
2-1-1/M82	0.81143	0.683
2-1/M82	1.14514	1
2-6/M82	N/A	N/A
3-2/M82	1.34004
4-1-1/M82	0.69883	1
4-1/M82	1.33827	0.853
4-3-2/M82	0.97363	1
4-3/M82	0.58923	0.509
5-3/M82	0.99899	1
6-2/M82	0.65877	0.497
6-3/M82	1.0576	1
7-1/M82	N/A	N/A
7-2/M82	0.79398	0.796
9-3-2/M82	0.90268	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.09376	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.1009	1
IL12-4/WTpooled	0.93929	1
IL1-4/WTpooled	0.92988	0.402
WT/WTpooled	1.03574	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	0.98333	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04941	0.921
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.12102	1
DC3000/delta hrp 24h	1.12498	0.212

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.11822	0.229
DC3000 delta B/DC3000 delta AB	1.10151	0.449

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89814	0.328
Exp 36h	1.21654	0.943
Exp 60h	1.1793	0.227

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99489	1
Var 0h	0.93426	0.457
Var 12h I row2-row1	1.0705	0.654
Var 12h NI row2-row1	0.8764	0.627
Var 36h I row2-row1	1.04869	0.908
Var 36h NI row2-row1	1.03873	1
Var 60h I row2-row1	0.95673	0.832
Var 60h NI row2-row1	0.94484	1
Time course 0hI-0hNI	0.98189	0.945
Time course 12hI-12hNI	1.08279	0.409
Time course 36hI-36hNI	1.13419	0.014
Time course 60hI-60hNI	1.58864	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)	0.92031	0.362
transgenic ySAMdc/azygous control (breaker)	0.79398	0.173
transgenic ySAMdc/azygous control (red)	1.0931	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99671	0.832

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88922	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.75178	0.172
Manapal/WT (break)	1.05619	1
Manapal/WT (red)	0.91409	0.36