Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.5.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76943	0.318
27DAP/17DAP	0.82568	0.621
39DAP/27DAP	0.81774	0.255
41DAP/39DAP	1.03836	1
42DAP/41DAP	1.04315	0.994
43DAP/42DAP	0.8775	0.759
47DAP/43DAP	1.08911	0.965
52DAP/47DAP	0.62591	0.255
57DAP/52DAP	1.05985	0.988

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.73744	0.029
17DAP/reference	0.84595	0.053
27DAP/reference	0.71159	0.054
39DAP/reference	0.92057	0.381
41DAP/reference	1.04869	0.667
42DAP/reference	2.269	0.001
43DAP/reference	1.92423	0.007
47DAP/reference	1.43558	0.048
52DAP/reference	0.65298	0.012
57DAP/reference	0.90395	0.221

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89551
27DAP/17DAP	0.88286	0.887
39DAP/27DAP	N/A	N/A
41DAP/39DAP	2.2248	0.579
42DAP/41DAP	1.54795	0.795
43DAP/42DAP	0.69489
47DAP/43DAP	0.99272	0.954
52DAP/47DAP	0.69968	0.433
57DAP/52DAP	0.75831	0.395
57DAP/7DAP	0.93717	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87366	0.27
17DAP/reference	1.09177	0.896
27DAP/reference	1.39936	0.16
39DAP/reference	1.43661	0.538
41DAP/reference	0.83047	0.082
42DAP/reference	1.56381	0.233
43DAP/reference	1.06348	1
47DAP/reference	2.37681	0.041
52DAP/reference	1.18994	0.247
57DAP/reference	1.49068	0.082

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.37812	0.269
17DAP/reference	1.09843	0.69
27DAP/reference	1.51734	0.025
39DAP/reference	1.27992	0.281
41DAP/reference	1.25211	0.023
42DAP/reference	1.69497	0.008
43DAP/reference	1.83059	0.047
47DAP/reference	2.07363	0.026
52DAP/reference	0.92762	0.22
57DAP/reference	1.6555	0.15

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.68704	0.043
17DAP/reference	0.90177	0.417
27DAP/reference	0.82413	0.102
39DAP/reference	1.05059	0.563
41DAP/reference	1.40791	0.168
42DAP/reference	1.43869	0.54
43DAP/reference	2.83403	0.121
47DAP/reference	1.59175	0.073
52DAP/reference	1.20828	0.813
57DAP/reference	0.68079	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.76929	0.379
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.57043	0.399
51DAP/34DAP	1.11593	0.829
52DAP/51DAP	0.92383	1
53DAP/52DAP	1.23	0.783
55DAP/53DAP	0.7429
57DAP/55DAP	1.32052	0.301
62DAP/57DAP	0.69827	0.28
68DAP/62DAP	0.51336	0.101
68DAP/14DAP	0.92637

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.53131

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.58221
Mature Green Tomato/Ripe Tomato	0.36472
Immature Eggplant/Mature Eggplant	43.5686	0.05
Ripe Pepper/Ripe Tomato	0.06992	0.224
Mature Eggplant/Ripe Tomato	0.06517

Experiment: IL carotenoid

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

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.90524	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.94568	1
IL12-4/WTpooled	0.92983	1
IL1-4/WTpooled	0.94281	0.834
WT/WTpooled	1.05418	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	1.17705	1
DC3000/delta hrp 12h	1.38934	1
DC3000/delta hrp 24h	N/A	N/A

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.41366	0.228
Exp 36h	2.05505	0.371
Exp 60h	2.16008	0.215

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	1.03529
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	0.68112	0.255
transgenic ySAMdc/azygous control (breaker)	0.62153	0.251
transgenic ySAMdc/azygous control (red)	1.25171	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.90371	0.058

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.59611	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.05269	1
Manapal/WT (break)	0.67204	0.299
Manapal/WT (red)	N/A	N/A