Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.16.7

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99567	0.867
27DAP/17DAP	1.28945	0.791
39DAP/27DAP	1.00178	0.798
41DAP/39DAP	0.87727	0.675
42DAP/41DAP	1.24661	0.722
43DAP/42DAP	0.84079	0.698
47DAP/43DAP	1.00006	0.89
52DAP/47DAP	1.40088	0.867
57DAP/52DAP	1.46574	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1364	0.132
17DAP/reference	0.99728	0.957
27DAP/reference	0.98545	0.711
39DAP/reference	1.20325	0.191
41DAP/reference	1.21338	0.014
42DAP/reference	1.49436	0.001
43DAP/reference	1.12257	0.269
47DAP/reference	4.02018	0.001
52DAP/reference	1.82521	0.009
57DAP/reference	1.20967	0.07

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01854	1
27DAP/17DAP	0.99686	0.969
39DAP/27DAP	1.23702	0.553
41DAP/39DAP	1.08032	0.896
42DAP/41DAP	1.36336	0.308
43DAP/42DAP	0.96633	0.751
47DAP/43DAP	0.86502	0.525
52DAP/47DAP	1.0268	0.927
57DAP/52DAP	1.003	0.869
57DAP/7DAP	1.02623	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.062	0.718
17DAP/reference	0.89058	0.253
27DAP/reference	0.84332	0.146
39DAP/reference	1.02607	1
41DAP/reference	0.91871	0.223
42DAP/reference	0.8417	0.169
43DAP/reference	1.06395	0.923
47DAP/reference	0.85623	0.168
52DAP/reference	1.14035	0.428
57DAP/reference	1.03645	0.799

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03312	0.951
17DAP/reference	1.13903	0.181
27DAP/reference	1.17927	0.367
39DAP/reference	1.10837	0.806
41DAP/reference	1.07913	0.471
42DAP/reference	1.18745	0.064
43DAP/reference	1.14645	0.509
47DAP/reference	1.30451	0.012
52DAP/reference	0.99945	0.713
57DAP/reference	1.19878	0.042

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00789	0.804
17DAP/reference	1.03715	1
27DAP/reference	0.92999	0.416
39DAP/reference	1.09686	0.235
41DAP/reference	1.11841	0.455
42DAP/reference	1.58905	0.158
43DAP/reference	1.65134	0.046
47DAP/reference	4.19845	0.005
52DAP/reference	2.79841	0.15
57DAP/reference	1.56243	0.068

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.91019	1
26DAP/20DAP	1.37781	0.136
34DAP/26DAP	0.95268	0.94
51DAP/34DAP	1.10454
52DAP/51DAP	1.03916	1
53DAP/52DAP	0.90335	0.52
55DAP/53DAP	1.20097	0.689
57DAP/55DAP	1.26963	0.793
62DAP/57DAP	1.30615	0.678
68DAP/62DAP	0.92807	0.787
68DAP/14DAP	0.64035	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.88082	0.239

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.39663
Mature Green Tomato/Ripe Tomato	4.87497	0.015
Immature Eggplant/Mature Eggplant	6.73194	0.05
Ripe Pepper/Ripe Tomato	0.15384	0.224
Mature Eggplant/Ripe Tomato	0.10437

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	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
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	1.31953	1

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	0.98102	0.95
DC3000/delta hrp 12h	1.11758	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	0.89136	0.805

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.26645	1
Exp 36h	1.56567	1
Exp 60h	0.89429	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99328	1
Var 0h	0.66984	0.933
Var 12h I row2-row1	1.02417	1
Var 12h NI row2-row1	0.95987	0.906
Var 36h I row2-row1	0.90253	1
Var 36h NI row2-row1	0.86121	1
Var 60h I row2-row1	1.06744	1
Var 60h NI row2-row1	1.02304	1
Time course 0hI-0hNI	1.00408	1
Time course 12hI-12hNI	0.94031	0.556
Time course 36hI-36hNI	0.77999	0.032
Time course 60hI-60hNI	0.35028	0.005

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)	0.76796	0.314
transgenic ySAMdc/azygous control (breaker)	0.34667	0.118
transgenic ySAMdc/azygous control (red)	0.96868	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.1174	0.223

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.59938	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.90483	0.105
Manapal/WT (break)	3.5484	0.14
Manapal/WT (red)	0.8798	0.36