Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.8.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09542	0.709
27DAP/17DAP	1.06121	0.92
39DAP/27DAP	0.77202	0.421
41DAP/39DAP	1.22191	0.498
42DAP/41DAP	1.01875	1
43DAP/42DAP	0.98623	0.932
47DAP/43DAP	1.09392	0.733
52DAP/47DAP	1.09491	0.973
57DAP/52DAP	1.02018	0.992

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98545	0.616
17DAP/reference	0.99054	0.858
27DAP/reference	1.0193	0.684
39DAP/reference	0.99622	0.957
41DAP/reference	1.05651	0.058
42DAP/reference	0.98856	0.337
43DAP/reference	1.04252	0.382
47DAP/reference	0.95772	0.161
52DAP/reference	0.943	0.283
57DAP/reference	0.8892	0.078

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9704	0.629
27DAP/17DAP	1.01496	0.968
39DAP/27DAP	1.13076	0.337
41DAP/39DAP	0.84692	0.398
42DAP/41DAP	1.34489	0.028
43DAP/42DAP	1.93632	0.013
47DAP/43DAP	0.95569	0.743
52DAP/47DAP	1.08571	0.766
57DAP/52DAP	0.95679	0.646
57DAP/7DAP	1.41643	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98606	0.613
17DAP/reference	0.958	0.064
27DAP/reference	0.9586	0.101
39DAP/reference	0.97476	0.146
41DAP/reference	0.93193	0.194
42DAP/reference	0.93314	0.034
43DAP/reference	0.9687	0.321
47DAP/reference	0.92408	0.222
52DAP/reference	0.96962	0.304
57DAP/reference	0.91871	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0622	0.55
17DAP/reference	1.05669	0.518
27DAP/reference	0.98918	0.619
39DAP/reference	0.98839	0.554
41DAP/reference	0.95375	0.226
42DAP/reference	1.06088	0.649
43DAP/reference	1.08851	0.297
47DAP/reference	1.04694	0.482
52DAP/reference	1.01744	0.882
57DAP/reference	1.10308	0.052

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21817	0.493
17DAP/reference	1.00343	0.934
27DAP/reference	0.91511	0.051
39DAP/reference	0.93032	0.092
41DAP/reference	0.91138	0.096
42DAP/reference	0.94116	0.134
43DAP/reference	0.9493	0.281
47DAP/reference	1.01458	1
52DAP/reference	0.90123	0.186
57DAP/reference	0.80241	0.023

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00925	0.966
26DAP/20DAP	0.79232	0.512
34DAP/26DAP	1.01279	1
51DAP/34DAP	1.01787	0.988
52DAP/51DAP	0.95154	1
53DAP/52DAP	1.17439	0.064
55DAP/53DAP	1.11418	0.434
57DAP/55DAP	0.92088	0.623
62DAP/57DAP	1.25583	0.35
68DAP/62DAP	0.82007	0.314
68DAP/14DAP	0.95836	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09508	0.212

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.51336	0.143
Mature Green Tomato/Ripe Tomato	0.83598	0.317
Immature Eggplant/Mature Eggplant	0.94199	1
Ripe Pepper/Ripe Tomato	2.20115	1
Mature Eggplant/Ripe Tomato	0.98046

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.97885	0.944
1-1-2/M82	0.99788	1
12-2/M82	0.95662	0.955
12-4/M82	1.05304	1
1-3/M82	0.93527	0.501
2-1-1/M82	1.06145	1
2-1/M82	0.87411	0.519
2-6/M82	0.98018	1
3-2/M82	0.92828
4-1-1/M82	1.02473	1
4-1/M82	1.36868	1
4-3-2/M82	0.93252	1
4-3/M82	0.813
5-3/M82	1.04109	1
6-2/M82	1.0427	1
6-3/M82	0.96278	0.982
7-1/M82	1.04108	1
7-2/M82	1.07193	1
9-3-2/M82	1.02799	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.03235
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.49568
WT/WTpooled	N/A	N/A

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	1.08754	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98699	1
DC3000/delta hrp 6h	1.23832	1
DC3000/delta hrp 12h	1.10569	1
DC3000/delta hrp 24h	0.97805	0.861

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.116	0.102
DC3000 delta B/DC3000 delta AB	0.95003	0.558

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.95288	1
Exp 36h	0.79908	0.623
Exp 60h	0.86744	0.855

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04727	1
Var 0h	0.98788	1
Var 12h I row2-row1	1.16151	0.283
Var 12h NI row2-row1	0.90273	0.627
Var 36h I row2-row1	1.02292	1
Var 36h NI row2-row1	0.96783	0.791
Var 60h I row2-row1	1.17621	1
Var 60h NI row2-row1	1.19289	0.904
Time course 0hI-0hNI	1.33894	0.574
Time course 12hI-12hNI	1.01936	0.849
Time course 36hI-36hNI	0.96638	0.352
Time course 60hI-60hNI	1.23703	0.01

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)	0.94806	0.454
transgenic ySAMdc/azygous control (breaker)	1.09214	1
transgenic ySAMdc/azygous control (red)	1.00126	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.0209	0.556

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.20337	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.1095	1
Manapal/WT (break)	1.65231	0.183
Manapal/WT (red)	3.26646	0.137