Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.1.10.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03854	0.904
27DAP/17DAP	1.16958	0.836
39DAP/27DAP	0.94877	0.663
41DAP/39DAP	1.18259	0.408
42DAP/41DAP	1.08852	0.978
43DAP/42DAP	0.83091	0.754
47DAP/43DAP	1.15489	0.842
52DAP/47DAP	1.10335	0.767
57DAP/52DAP	0.94166	0.92

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07448	0.078
17DAP/reference	1.0505	0.096
27DAP/reference	1.02595	0.623
39DAP/reference	0.92381	0.35
41DAP/reference	1.12642	0.032
42DAP/reference	0.97089	0.278
43DAP/reference	1.01264	0.957
47DAP/reference	0.96584	0.322
52DAP/reference	0.86356	0.069
57DAP/reference	0.92786	0.071

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.96286	0.578
27DAP/17DAP	0.99852	0.969
39DAP/27DAP	1.08147	0.512
41DAP/39DAP	0.92456	0.481
42DAP/41DAP	1.10381	0.663
43DAP/42DAP	1.03807	0.699
47DAP/43DAP	0.90345	0.373
52DAP/47DAP	1.05074	0.804
57DAP/52DAP	1.11434	0.385
57DAP/7DAP	0.99203	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93884	0.157
17DAP/reference	0.97346	0.192
27DAP/reference	0.98011	0.264
39DAP/reference	0.97108	0.073
41DAP/reference	0.99341	0.646
42DAP/reference	1.00485	1
43DAP/reference	0.97718	0.334
47DAP/reference	0.94231	0.222
52DAP/reference	0.91484	0.053
57DAP/reference	0.99483	0.648

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06468	0.154
17DAP/reference	1.05136	0.33
27DAP/reference	0.8775	0.16
39DAP/reference	0.93374	0.208
41DAP/reference	1.00291	0.718
42DAP/reference	0.95954	0.392
43DAP/reference	1.05729	0.761
47DAP/reference	1.07486	0.498
52DAP/reference	1.02476	0.938
57DAP/reference	1.06739	0.771

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91296	0.047
17DAP/reference	0.99332	0.792
27DAP/reference	0.88983	0.069
39DAP/reference	0.89692	0.058
41DAP/reference	0.93356	0.209
42DAP/reference	0.90377	0.22
43DAP/reference	0.87961	0.061
47DAP/reference	1.05859	0.901
52DAP/reference	0.95529	0.482
57DAP/reference	0.74835	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07105	0.966
26DAP/20DAP	0.92349	1
34DAP/26DAP	1.07536	1
51DAP/34DAP	0.89368	0.504
52DAP/51DAP	1.18958	0.108
53DAP/52DAP	0.84697	0.112
55DAP/53DAP	1.10192	0.622
57DAP/55DAP	0.96484	0.831
62DAP/57DAP	1.15125	0.393
68DAP/62DAP	1.03316	0.939
68DAP/14DAP	0.78441	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.7657	0.024

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.29208	0.085
Mature Green Tomato/Ripe Tomato	1.095	0.752
Immature Eggplant/Mature Eggplant	1.07373	1
Ripe Pepper/Ripe Tomato	0.8035	1
Mature Eggplant/Ripe Tomato	1.0198	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.88957	0.907
1-1-2/M82	0.98775	1
12-2/M82	0.85423	0.955
12-4/M82	1.12826	1
1-3/M82	0.87704	0.501
2-1-1/M82	1.28581	0.764
2-1/M82	0.76929	0.519
2-6/M82	1.176
3-2/M82	1.11561
4-1-1/M82	0.93091	0.792
4-1/M82	N/A	N/A
4-3-2/M82	1.04873	1
4-3/M82	0.63035	0.578
5-3/M82	0.84487	0.642
6-2/M82	N/A	N/A
6-3/M82	1.15432	1
7-1/M82	1.03641	1
7-2/M82	0.98379	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.69669	0.277
IL2-6/WTpooled	1.67482	0.395
IL7-5/WTpooled	1.95552	1
IL7-3/WTpooled	0.96396	1
IL12-4/WTpooled	1.13983	0.839
IL1-4/WTpooled	1.18969	1
WT/WTpooled	1.05905	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	1.14008	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.89393	0.839
DC3000/delta hrp 6h	1.01882	1
DC3000/delta hrp 12h	1.04789	1
DC3000/delta hrp 24h	1.53176	0.453

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.2149	0.134
DC3000 delta B/DC3000 delta AB	1.076	0.586

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06114	1
Exp 36h	1.2481	1
Exp 60h	1.20053	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01506	1
Var 0h	1.15354	0.98
Var 12h I row2-row1	0.9225	0.705
Var 12h NI row2-row1	1.03716	1
Var 36h I row2-row1	1.07561	0.908
Var 36h NI row2-row1	1.01435	1
Var 60h I row2-row1	0.86418	0.285
Var 60h NI row2-row1	1.0718	0.904
Time course 0hI-0hNI	1.097	0.799
Time course 12hI-12hNI	0.99926	1
Time course 36hI-36hNI	0.87262	0.023
Time course 60hI-60hNI	1.0075	1

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)	0.92151	0.567
transgenic ySAMdc/azygous control (breaker)	0.4694	0.142
transgenic ySAMdc/azygous control (red)	1.32104	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99979	0.967

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.73898	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.97171	0.14
Manapal/WT (break)	0.75508	0.333
Manapal/WT (red)	0.80813	0.274