Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.17.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89337	0.511
27DAP/17DAP	1.08295	0.868
39DAP/27DAP	1.05192	1
41DAP/39DAP	1.27782	0.498
42DAP/41DAP	1.04394	1
43DAP/42DAP	0.77608	0.543
47DAP/43DAP	0.85107	0.54
52DAP/47DAP	2.47359	0.274
57DAP/52DAP	0.82511	0.772

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95095	0.344
17DAP/reference	1.02271	0.585
27DAP/reference	0.96601	0.552
39DAP/reference	1.04506	0.497
41DAP/reference	1.10002	0.05
42DAP/reference	1.03234	0.504
43DAP/reference	1.09576	0.083
47DAP/reference	1.00121	0.764
52DAP/reference	0.90374	0.108
57DAP/reference	1.00461	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.86779	0.35
27DAP/17DAP	1.07058	0.942
39DAP/27DAP	1.07949	0.654
41DAP/39DAP	0.97062	0.968
42DAP/41DAP	1.00904	0.777
43DAP/42DAP	1.00984	1
47DAP/43DAP	1.0569	0.88
52DAP/47DAP	1.0329	0.956
57DAP/52DAP	0.89654	0.466
57DAP/7DAP	1.00258	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02389	0.682
17DAP/reference	1.1431	0.123
27DAP/reference	0.92847	0.264
39DAP/reference	0.98976	0.552
41DAP/reference	0.97054	0.489
42DAP/reference	0.94654	0.371
43DAP/reference	1.02768	0.694
47DAP/reference	0.94637	0.504
52DAP/reference	0.96775	0.435
57DAP/reference	0.94247	0.26

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97329	0.669
17DAP/reference	1.04016	0.628
27DAP/reference	1.06429	0.648
39DAP/reference	0.93608	0.281
41DAP/reference	0.89645	0.081
42DAP/reference	1.02616	0.987
43DAP/reference	1.08479	0.447
47DAP/reference	1.05737	0.164
52DAP/reference	1.04644	0.471
57DAP/reference	1.32664	0.019

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89712	0.104
17DAP/reference	1.02439	0.887
27DAP/reference	0.86317	0.133
39DAP/reference	0.99812	0.819
41DAP/reference	0.93233	0.417
42DAP/reference	1.02605	0.943
43DAP/reference	0.89819	0.334
47DAP/reference	0.94337	0.24
52DAP/reference	1.0003	0.704
57DAP/reference	0.79868	0.035

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96986	1
26DAP/20DAP	0.88777	1
34DAP/26DAP	0.90914	0.728
51DAP/34DAP	0.94729	0.631
52DAP/51DAP	1.20609	0.193
53DAP/52DAP	0.93788	0.604
55DAP/53DAP	1.13911	0.696
57DAP/55DAP	0.96453	0.821
62DAP/57DAP	1.21375	0.622
68DAP/62DAP	0.86874	0.345
68DAP/14DAP	0.83338	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.00489	0.814

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.64906
Mature Green Tomato/Ripe Tomato	1.20568	0.331
Immature Eggplant/Mature Eggplant	1.02455	1
Ripe Pepper/Ripe Tomato	0.80469	1
Mature Eggplant/Ripe Tomato	1.25494	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.09857	1
1-1-2/M82	0.82379	1
12-2/M82	1.16744	1
12-4/M82	0.8793	1
1-3/M82	0.98525	1
2-1-1/M82	1.59575
2-1/M82	1.14191
2-6/M82	0.99334	1
3-2/M82	0.76044
4-1-1/M82	1.01243	1
4-1/M82	0.89695	1
4-3-2/M82	0.99562	1
4-3/M82	0.72633	0.72
5-3/M82	1.00318	1
6-2/M82	0.97905	1
6-3/M82	1.01167	1
7-1/M82	0.91851
7-2/M82	1.07525	1
9-3-2/M82	0.71996

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.12015	0.531
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.1402	1
IL12-4/WTpooled	1.13371	0.673
IL1-4/WTpooled	1.02406
WT/WTpooled	1.00832	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	1.2886	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06555	0.921
DC3000/delta hrp 6h	1.19043	1
DC3000/delta hrp 12h	1.14472	1
DC3000/delta hrp 24h	1.15426	0.271

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	0.94709	0.71

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.07586	0.227
Exp 36h	1.2943	0.693
Exp 60h	1.18855	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9894	1
Var 0h	1.30586
Var 12h I row2-row1	1.01171	1
Var 12h NI row2-row1	0.94454	0.906
Var 36h I row2-row1	0.88673	0.805
Var 36h NI row2-row1	0.97911	0.852
Var 60h I row2-row1	1.35425	0.562
Var 60h NI row2-row1	1.18321	0.904
Time course 0hI-0hNI	0.99359	0.942
Time course 12hI-12hNI	0.98656	0.886
Time course 36hI-36hNI	1.21477	0.355
Time course 60hI-60hNI	1.37654	0.053

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)	1.02792	0.748
transgenic ySAMdc/azygous control (breaker)	1.07356	1
transgenic ySAMdc/azygous control (red)	0.89495	1

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	0.69537	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.94651	1
Manapal/WT (break)	1.05572	1
Manapal/WT (red)	0.90904	0.503