Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.4.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94995	0.722
27DAP/17DAP	1.14199	0.854
39DAP/27DAP	0.6335	0.346
41DAP/39DAP	1.19898	0.584
42DAP/41DAP	0.92323	1
43DAP/42DAP	1.72241	0.466
47DAP/43DAP	0.91986	0.696
52DAP/47DAP	1.05525	0.946
57DAP/52DAP	0.77594	0.768

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83368	0.092
17DAP/reference	1.14181	0.258
27DAP/reference	1.04077	0.684
39DAP/reference	1.03182	0.615
41DAP/reference	1.01675	0.91
42DAP/reference	0.87194	0.021
43DAP/reference	0.96097	0.519
47DAP/reference	0.91185	0.016
52DAP/reference	1.07685	1
57DAP/reference	0.91137	0.262

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.34446	0.089
27DAP/17DAP	1.10604	0.885
39DAP/27DAP	0.86896	0.367
41DAP/39DAP	0.7384	0.256
42DAP/41DAP	1.57148	0.582
43DAP/42DAP	1.25094	0.746
47DAP/43DAP	0.94306	0.823
52DAP/47DAP	0.84374	0.634
57DAP/52DAP	1.12266	0.657
57DAP/7DAP	1.34697	0.22

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95264	0.402
17DAP/reference	0.86227	0.108
27DAP/reference	1.15059	0.026
39DAP/reference	0.91596	0.354
41DAP/reference	0.9545	0.538
42DAP/reference	1.0715	0.686
43DAP/reference	1.04	1
47DAP/reference	1.16101	0.98
52DAP/reference	1.14646	0.428
57DAP/reference	1.07283	0.799

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99604	0.869
17DAP/reference	1.02628	0.859
27DAP/reference	0.89806	0.15
39DAP/reference	0.96502	0.416
41DAP/reference	1.00664	0.735
42DAP/reference	0.80853	0.073
43DAP/reference	0.93273	0.344
47DAP/reference	0.91697	0.069
52DAP/reference	0.95137	0.302
57DAP/reference	0.92514	0.338

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84552	0.127
17DAP/reference	1.00728	0.739
27DAP/reference	10.0601	0.312
39DAP/reference	1.01172	0.987
41DAP/reference	1.10188	0.249
42DAP/reference	1.13441	0.529
43DAP/reference	0.96414	0.568
47DAP/reference	0.82696	0.145
52DAP/reference	1.00566	1
57DAP/reference	0.70563	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.05736	0.966
26DAP/20DAP	1.4125	0.379
34DAP/26DAP	0.9831	1
51DAP/34DAP	0.84358
52DAP/51DAP	1.0243	1
53DAP/52DAP	0.96111	0.854
55DAP/53DAP	1.45755	0.494
57DAP/55DAP	1.01218	0.891
62DAP/57DAP	1.02735	1
68DAP/62DAP	0.75593	0.345
68DAP/14DAP	1.04225	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	3.58122	0.064

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.38921	0.078
Mature Green Tomato/Ripe Tomato	0.06757
Immature Eggplant/Mature Eggplant	0.91486	0.292
Ripe Pepper/Ripe Tomato	3.20469	0.256
Mature Eggplant/Ripe Tomato	2.84245	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.23803
1-1-2/M82	1.14381	0.977
12-2/M82	1.05674
12-4/M82	0.80641	0.33
1-3/M82	0.78376
2-1-1/M82	0.57055
2-1/M82	0.88575
2-6/M82	1.39723
3-2/M82	0.84798
4-1-1/M82	0.80754	0.824
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.57035
5-3/M82	0.76824	0.387
6-2/M82	0.94004
6-3/M82	0.64234	0.857
7-1/M82	N/A	N/A
7-2/M82	1.30705
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	1.16062	0.531
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.84589	0.31
IL12-4/WTpooled	1.01161	1
IL1-4/WTpooled	1.17512
WT/WTpooled	1.03131	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	1.28855	0.479

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9031	1
DC3000/delta hrp 6h	1.05919	1
DC3000/delta hrp 12h	0.99697	1
DC3000/delta hrp 24h	1.37597	0.059

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	0.52534

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.84392	1
Exp 36h	0.69556	0.471
Exp 60h	0.71279	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98371	1
Var 0h	1.63064	0.259
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	1.83221

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)	0.89579	0.286
transgenic ySAMdc/azygous control (breaker)	1.37232	0.162
transgenic ySAMdc/azygous control (red)	1.18521	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.16425	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.57892	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.53656	0.087
Manapal/WT (break)	0.98729	1
Manapal/WT (red)	1.92662	0.15