Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.16.5

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95824	0.728
27DAP/17DAP	1.04197	0.92
39DAP/27DAP	0.98514	0.769
41DAP/39DAP	1.32722	0.753
42DAP/41DAP	1.29769	0.743
43DAP/42DAP	0.85886	0.708
47DAP/43DAP	0.91996	0.693
52DAP/47DAP	1.00443	0.973
57DAP/52DAP	0.77277	0.869

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83998	0.149
17DAP/reference	0.8901	0.169
27DAP/reference	0.82082	0.07
39DAP/reference	0.79266	0.032
41DAP/reference	0.69901	0.049
42DAP/reference	0.85366	0.04
43DAP/reference	0.98796	0.785
47DAP/reference	0.99319	0.602
52DAP/reference	0.94599	0.382
57DAP/reference	1.11256	0.291

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91845	0.47
27DAP/17DAP	1.13559	0.957
39DAP/27DAP	1.24094	0.324
41DAP/39DAP	1.04395	1
42DAP/41DAP	1.10207	0.879
43DAP/42DAP	1.0609	1
47DAP/43DAP	1.0072	0.939
52DAP/47DAP	1.29914	0.586
57DAP/52DAP	1.37544	0.183
57DAP/7DAP	1.32362	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82716	0.066
17DAP/reference	0.83975	0.02
27DAP/reference	1.04286	1
39DAP/reference	0.59417	0.011
41DAP/reference	0.56439	0.011
42DAP/reference	0.6874	0.019
43DAP/reference	0.80212	0.017
47DAP/reference	0.76914	0.036
52DAP/reference	0.74653	0.019
57DAP/reference	0.66563	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82806	0.14
17DAP/reference	0.81555	0.139
27DAP/reference	0.76456	0.01
39DAP/reference	0.9109	0.227
41DAP/reference	0.87693	0.148
42DAP/reference	0.89074	0.189
43DAP/reference	0.87085	0.217
47DAP/reference	0.86367	0.062
52DAP/reference	1.11111	0.713
57DAP/reference	0.81319	0.005

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.78732	0.032
17DAP/reference	0.89005	0.322
27DAP/reference	0.93662	0.257
39DAP/reference	0.75821	0.058
41DAP/reference	0.8253	0.086
42DAP/reference	0.82984	0.087
43DAP/reference	0.87161	0.102
47DAP/reference	0.71969	0.057
52DAP/reference	1.01477	0.529
57DAP/reference	1.1043	0.255

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.56536	0.966
26DAP/20DAP	1.00947	1
34DAP/26DAP	1.13255	1
51DAP/34DAP	0.72404	0.201
52DAP/51DAP	0.93029	1
53DAP/52DAP	1.16771	0.935
55DAP/53DAP	0.98571	0.886
57DAP/55DAP	1.05487	0.986
62DAP/57DAP	0.94648	0.871
68DAP/62DAP	1.01419	1
68DAP/14DAP	0.75287	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.95229	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	4.42333
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.13629
1-1-2/M82	0.85114	0.958
12-2/M82	N/A	N/A
12-4/M82	1.05277	0.563
1-3/M82	N/A	N/A
2-1-1/M82	0.89033	0.92
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.82177
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	1.06053	1
5-3/M82	0.92019	0.642
6-2/M82	0.96469	0.444
6-3/M82	1.15805	1
7-1/M82	0.9272	1
7-2/M82	0.98106	0.599
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	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	0.9538	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.0584	1
DC3000/delta hrp 24h	0.9956	1

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	1.24269	1
Exp 36h	1.96104	1
Exp 60h	1.41829	0.18

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

hybridization	ratio	FDR (corrected p value)
self-self	0.93431	1
Var 0h	1.06637	1
Var 12h I row2-row1	1.11336	0.613
Var 12h NI row2-row1	0.89494	0.627
Var 36h I row2-row1	1.13404	1
Var 36h NI row2-row1	1.03176	1
Var 60h I row2-row1	0.90592
Var 60h NI row2-row1	0.97521	1
Time course 0hI-0hNI	0.84468	0.994
Time course 12hI-12hNI	1.05173	0.754
Time course 36hI-36hNI	0.94227	0.418
Time course 60hI-60hNI	0.84271	0.026

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)	1.38072	0.326
transgenic ySAMdc/azygous control (breaker)	1.2374	0.248
transgenic ySAMdc/azygous control (red)	1.01689	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95549	0.248

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.96155	0.789

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.62876	1
Manapal/WT (break)	1.08409	1
Manapal/WT (red)	N/A	N/A