Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.7.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13823	0.485
27DAP/17DAP	0.60275	0.029
39DAP/27DAP	0.78939	0.425
41DAP/39DAP	0.73378	0.068
42DAP/41DAP	0.96401	1
43DAP/42DAP	1.08915	1
47DAP/43DAP	0.96762	0.859
52DAP/47DAP	1.14366	0.902
57DAP/52DAP	1.20691	0.908

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04647	0.994
17DAP/reference	1.07301	1
27DAP/reference	0.87295	0.295
39DAP/reference	0.80585	0.149
41DAP/reference	0.66143	0.049
42DAP/reference	0.69393	0.003
43DAP/reference	0.66612	0.037
47DAP/reference	0.58094	0.005
52DAP/reference	0.40774	0.017
57DAP/reference	0.55945	0.017

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.30612	0.048
27DAP/17DAP	0.93678	0.748
39DAP/27DAP	0.63876	0.047
41DAP/39DAP	1.18481	0.69
42DAP/41DAP	0.92237	0.443
43DAP/42DAP	0.82457	0.03
47DAP/43DAP	0.98413	0.923
52DAP/47DAP	1.08553	0.689
57DAP/52DAP	1.03641	0.813
57DAP/7DAP	0.73147	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.74427	0.024
17DAP/reference	1.1189	0.244
27DAP/reference	0.79723	0.031
39DAP/reference	0.87197	0.198
41DAP/reference	0.46369	0.009
42DAP/reference	0.4112	0.01
43DAP/reference	0.40496	0.01
47DAP/reference	0.34184	0.036
52DAP/reference	0.63698	0.023
57DAP/reference	0.68546	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90836	0.386
17DAP/reference	0.87471	0.239
27DAP/reference	0.79819	0.013
39DAP/reference	0.60667	0.012
41DAP/reference	0.66186	0.042
42DAP/reference	0.62685	0.012
43DAP/reference	0.27083	0.002
47DAP/reference	0.54398	0.013
52DAP/reference	0.37944	0.003
57DAP/reference	0.21056	0.002

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	3.73253	0.015
17DAP/reference	2.65614	0.109
27DAP/reference	2.27264	0.014
39DAP/reference	1.74109	0.007
41DAP/reference	1.24788	0.319
42DAP/reference	0.83976	0.22
43DAP/reference	0.80997	0.256
47DAP/reference	0.57845	0.005
52DAP/reference	0.81003	0.242
57DAP/reference	1.46871	0.031

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07284	0.966
26DAP/20DAP	0.98601	1
34DAP/26DAP	1.07366	0.542
51DAP/34DAP	1.00982	0.936
52DAP/51DAP	1.16752	0.082
53DAP/52DAP	0.92219	0.259
55DAP/53DAP	1.09741	0.368
57DAP/55DAP	0.96479	0.825
62DAP/57DAP	1.00412	1
68DAP/62DAP	1.37989	0.533
68DAP/14DAP	0.26483	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.0361	0.7

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	6.57772	0.068
Mature Green Tomato/Ripe Tomato	3.611	0.016
Immature Eggplant/Mature Eggplant	0.37087	0.057
Ripe Pepper/Ripe Tomato	1.21488	0.256
Mature Eggplant/Ripe Tomato	3.59666	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	2.35861	0.526
1-1-2/M82	0.97583	1
12-2/M82	0.51124	0.692
12-4/M82	0.85194	1
1-3/M82	1.2269	1
2-1-1/M82	1.40289	0.457
2-1/M82	2.29864	0.345
2-6/M82	1.51016	0.352
3-2/M82	1.69768
4-1-1/M82	0.98122	1
4-1/M82	0.99589	1
4-3-2/M82	0.91225	0.698
4-3/M82	0.53754	0.551
5-3/M82	3.05129	0.467
6-2/M82	1.18595
6-3/M82	1.16333	1
7-1/M82	0.81815
7-2/M82	1.61442	1
9-3-2/M82	1.10388	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.43307	0.277
IL2-6/WTpooled	1.03756	0.788
IL7-5/WTpooled	0.93647	1
IL7-3/WTpooled	1.18676	1
IL12-4/WTpooled	1.10852	0.595
IL1-4/WTpooled	1.05989	1
WT/WTpooled	0.92573	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	0.94706	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.98901	1
DC3000/delta hrp 6h	0.90107	0.95
DC3000/delta hrp 12h	1.10372	1
DC3000/delta hrp 24h	0.93682	0.513

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.66098	0.025
DC3000 delta B/DC3000 delta AB	0.53473	0.02

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.065	1
Exp 36h	0.91284	0.471
Exp 60h	0.81829	0.266

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

hybridization	ratio	FDR (corrected p value)
self-self	0.94451	1
Var 0h	0.77533	1
Var 12h I row2-row1	0.87504	0.353
Var 12h NI row2-row1	0.95824	0.713
Var 36h I row2-row1	1.04814	1
Var 36h NI row2-row1	0.98235	0.791
Var 60h I row2-row1	1.06955	1
Var 60h NI row2-row1	1.01575	1
Time course 0hI-0hNI	0.97804	0.9
Time course 12hI-12hNI	1.01726	0.82
Time course 36hI-36hNI	1.03592	0.722
Time course 60hI-60hNI	0.69864	0.047

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)	1.18736	0.571
transgenic ySAMdc/azygous control (breaker)	3.30593	0.162
transgenic ySAMdc/azygous control (red)	1.68819	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.81912	0.248

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.38874	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	3.07054	0.084
Manapal/WT (break)	1.92467	0.381
Manapal/WT (red)	0.92944	0.503