Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.4.1.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.27122	0.709
27DAP/17DAP	1.27353	0.784
39DAP/27DAP	0.77337	0.286
41DAP/39DAP	1.58992	0.293
42DAP/41DAP	1.06802	1
43DAP/42DAP	0.93342	0.874
47DAP/43DAP	0.83254	0.487
52DAP/47DAP	2.1992	0.164
57DAP/52DAP	0.84072	0.764

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99911	0.693
17DAP/reference	0.99224	0.777
27DAP/reference	0.97257	0.428
39DAP/reference	0.96439	0.575
41DAP/reference	0.99955	1
42DAP/reference	0.90943	0.032
43DAP/reference	0.98741	0.675
47DAP/reference	0.86751	0.011
52DAP/reference	0.83163	0.025
57DAP/reference	0.8049	0.019

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.20801	0.1
27DAP/17DAP	1.05064	0.957
39DAP/27DAP	1.04122	0.707
41DAP/39DAP	1.1929	0.837
42DAP/41DAP	0.93808	0.584
43DAP/42DAP	1.07764	0.554
47DAP/43DAP	1.03235	0.963
52DAP/47DAP	1.1207	0.63
57DAP/52DAP	1.21058	0.398
57DAP/7DAP	1.01754	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80082	0.122
17DAP/reference	0.82866	0.072
27DAP/reference	0.79041	0.01
39DAP/reference	0.72298	0.012
41DAP/reference	0.73563	0.023
42DAP/reference	0.73308	0.01
43DAP/reference	0.63694	0.012
47DAP/reference	0.80906	0.066
52DAP/reference	0.57605	0.014
57DAP/reference	0.60461	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22754	0.091
17DAP/reference	1.15418	0.035
27DAP/reference	0.95828	0.393
39DAP/reference	0.82804	0.01
41DAP/reference	0.8798	0.096
42DAP/reference	0.79219	0.013
43DAP/reference	1.36957	0.014
47DAP/reference	0.9726	0.359
52DAP/reference	1.03062	0.938
57DAP/reference	1.1355	0.193

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80721	0.071
17DAP/reference	0.99743	0.751
27DAP/reference	0.67901	0.036
39DAP/reference	0.54326	0.006
41DAP/reference	0.70651	0.018
42DAP/reference	0.70067	0.02
43DAP/reference	0.74562	0.04
47DAP/reference	0.99046	0.626
52DAP/reference	0.77619	0.2
57DAP/reference	0.66508	0.02

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.14296	0.966
26DAP/20DAP	0.70933	0.228
34DAP/26DAP	0.99741	1
51DAP/34DAP	0.96182	0.779
52DAP/51DAP	1.21109	0.186
53DAP/52DAP	1.10679	0.723
55DAP/53DAP	1.09261	0.608
57DAP/55DAP	1.03191	0.935
62DAP/57DAP	1.31108	0.069
68DAP/62DAP	0.90167	0.668
68DAP/14DAP	0.80783	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.75237	0.031

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.72805	0.276
Mature Green Tomato/Ripe Tomato	0.69145	0.148
Immature Eggplant/Mature Eggplant	1.71211	0.123
Ripe Pepper/Ripe Tomato	1.56634
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91379	0.944
1-1-2/M82	0.94773
12-2/M82	1.527
12-4/M82	1.06807
1-3/M82	0.9082	0.501
2-1-1/M82	1.29684	1
2-1/M82	N/A	N/A
2-6/M82	1.17238	0.594
3-2/M82	0.75448
4-1-1/M82	1.09839	1
4-1/M82	1.10732	1
4-3-2/M82	0.86995	1
4-3/M82	1.01158	1
5-3/M82	0.91991	0.49
6-2/M82	0.7269
6-3/M82	0.56052
7-1/M82	1.07529	0.598
7-2/M82	1.13982	1
9-3-2/M82	0.8028

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.76791	0.321
IL2-6/WTpooled	1.17579	0.584
IL7-5/WTpooled	0.55847	1
IL7-3/WTpooled	0.87863	0.293
IL12-4/WTpooled	0.97503	1
IL1-4/WTpooled	1.16567	1
WT/WTpooled	0.90984	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	0.82037	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.062	0.921
DC3000/delta hrp 6h	0.94065	0.95
DC3000/delta hrp 12h	1.26059	1
DC3000/delta hrp 24h	1.06358	0.502

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	0.99493

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09141	1
Exp 36h	0.83759	0.623
Exp 60h	1.103	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99561	1
Var 0h	4.03878	0.936
Var 12h I row2-row1	1.16083	0.228
Var 12h NI row2-row1	0.89045	0.494
Var 36h I row2-row1	0.87235	0.438
Var 36h NI row2-row1	1.12252	1
Var 60h I row2-row1	1.62549	1
Var 60h NI row2-row1	1.37822	0.904
Time course 0hI-0hNI	1.05458	0.662
Time course 12hI-12hNI	0.97601	0.87
Time course 36hI-36hNI	0.95224	0.28
Time course 60hI-60hNI	1.24539	0.019

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)	0.98177	0.485
transgenic ySAMdc/azygous control (breaker)	0.75955	0.142
transgenic ySAMdc/azygous control (red)	1.05962	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05995	0.11

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.20338	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94277	1
Manapal/WT (break)	0.9258	1
Manapal/WT (red)	0.89221	0.216