Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.17.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.22273	0.394
27DAP/17DAP	1.09973	0.859
39DAP/27DAP	0.89581	0.544
41DAP/39DAP	0.85905	0.465
42DAP/41DAP	0.95717	1
43DAP/42DAP	0.9236	0.867
47DAP/43DAP	1.09654	0.943
52DAP/47DAP	1.04999	0.875
57DAP/52DAP	1.02018	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90308	0.074
17DAP/reference	0.88498	0.035
27DAP/reference	0.98101	0.623
39DAP/reference	1.02039	0.92
41DAP/reference	0.94397	0.434
42DAP/reference	0.88866	0.02
43DAP/reference	0.88551	0.049
47DAP/reference	0.9759	0.366
52DAP/reference	1.1335	0.272
57DAP/reference	1.14628	0.038

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04955	1
27DAP/17DAP	0.88422	0.724
39DAP/27DAP	1.10647	0.672
41DAP/39DAP	0.93165	0.839
42DAP/41DAP	0.88388	0.309
43DAP/42DAP	0.81173	0.206
47DAP/43DAP	1.08422	0.88
52DAP/47DAP	1.20216	0.532
57DAP/52DAP	1.17806	0.431
57DAP/7DAP	0.86312	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.76545	0.088
17DAP/reference	1.00434	1
27DAP/reference	1.27745	0.012
39DAP/reference	1.0006	1
41DAP/reference	1.16126	0.35
42DAP/reference	1.24314	0.132
43DAP/reference	1.1819	0.307
47DAP/reference	0.96499	0.504
52DAP/reference	1.07794	0.491
57DAP/reference	0.94598	0.291

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96342	0.592
17DAP/reference	1.00656	0.805
27DAP/reference	1.0025	0.79
39DAP/reference	0.93341	0.274
41DAP/reference	0.96013	0.403
42DAP/reference	1.02043	1
43DAP/reference	1.38745	0.195
47DAP/reference	0.96898	0.4
52DAP/reference	1.06703	0.747
57DAP/reference	0.94426	0.169

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75109	0.036
17DAP/reference	1.03554	0.746
27DAP/reference	1.23439	0.062
39DAP/reference	1.16402	0.024
41DAP/reference	1.2034	0.047
42DAP/reference	1.12114	0.138
43DAP/reference	0.78605	0.051
47DAP/reference	0.96403	0.452
52DAP/reference	0.99036	0.838
57DAP/reference	1.23554	0.039

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94687	1
26DAP/20DAP	0.91117	0.317
34DAP/26DAP	0.96774	0.98
51DAP/34DAP	0.90869	0.703
52DAP/51DAP	0.80659	1
53DAP/52DAP	1.01847	1
55DAP/53DAP	0.91709	0.489
57DAP/55DAP	1.34102	0.543
62DAP/57DAP	1.05875	0.868
68DAP/62DAP	1.33809	0.383
68DAP/14DAP	1.55033	0.027

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.70872	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.09155	0.666
Mature Green Tomato/Ripe Tomato	1.21956	0.632
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.25335	1
Mature Eggplant/Ripe Tomato	1.15074	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.21288	0.536
1-1-2/M82	1.09826	1
12-2/M82	N/A	N/A
12-4/M82	0.85224	0.358
1-3/M82	0.74353	0.441
2-1-1/M82	N/A	N/A
2-1/M82	1.04512
2-6/M82	0.89646	1
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.31056
4-3-2/M82	N/A	N/A
4-3/M82	0.92908	1
5-3/M82	1.05715	1
6-2/M82	0.70856
6-3/M82	1.26874	1
7-1/M82	N/A	N/A
7-2/M82	0.82627	0.57
9-3-2/M82	0.76898

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.1442	1
IL2-6/WTpooled	1.05065	1
IL7-5/WTpooled	0.90378
IL7-3/WTpooled	1.00463	1
IL12-4/WTpooled	1.07887	1
IL1-4/WTpooled	1.07457	1
WT/WTpooled	1.12837	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	0.90735	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11561	0.921
DC3000/delta hrp 6h	1.21409	1
DC3000/delta hrp 12h	0.9746	1
DC3000/delta hrp 24h	0.81463	0.202

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	N/A	N/A
Exp 36h	1.20044	1
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05024	1
Var 0h	1.07555	0.98
Var 12h I row2-row1	1.07385	0.692
Var 12h NI row2-row1	0.52202	0.82
Var 36h I row2-row1	0.86456	0.34
Var 36h NI row2-row1	1.21306
Var 60h I row2-row1	1.14527	0.562
Var 60h NI row2-row1	1.50109	1
Time course 0hI-0hNI	0.79055	0.11
Time course 12hI-12hNI	1.13426	0.611
Time course 36hI-36hNI	1.20083	0.19
Time course 60hI-60hNI	0.92404	0.673

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)	1.10771	0.325
transgenic ySAMdc/azygous control (breaker)	0.99499	1
transgenic ySAMdc/azygous control (red)	1.08475	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.00517	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.76388	0.172
Manapal/WT (break)	1.0521	1
Manapal/WT (red)	0.94616	0.607