Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.4.13.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.3664	0.188
27DAP/17DAP	1.10992	0.88
39DAP/27DAP	1.29374	0.779
41DAP/39DAP	0.806	0.401
42DAP/41DAP	0.78818	0.774
43DAP/42DAP	1.06481	0.937
47DAP/43DAP	1.50515	0.563
52DAP/47DAP	1.32146	0.758
57DAP/52DAP	1.10742	0.964

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9787	0.562
17DAP/reference	1.06242	0.355
27DAP/reference	0.98577	0.683
39DAP/reference	0.99417	0.921
41DAP/reference	0.94018	0.341
42DAP/reference	0.84574	0.002
43DAP/reference	0.96165	0.519
47DAP/reference	0.89664	0.035
52DAP/reference	0.80251	0.024
57DAP/reference	0.97505	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.61527	0.042
27DAP/17DAP	1.17458	0.399
39DAP/27DAP	1.15802	0.262
41DAP/39DAP	1.05586	0.853
42DAP/41DAP	1.05876	0.675
43DAP/42DAP	1.10915	0.351
47DAP/43DAP	1.02803	0.948
52DAP/47DAP	0.84069	0.271
57DAP/52DAP	0.86182	0.283
57DAP/7DAP	0.83318	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92716	0.095
17DAP/reference	0.8039	0.012
27DAP/reference	0.94848	0.215
39DAP/reference	1.01918	1
41DAP/reference	0.95602	0.326
42DAP/reference	0.8716	0.2
43DAP/reference	1.0588	0.386
47DAP/reference	0.89783	0.222
52DAP/reference	1.02571	0.832
57DAP/reference	0.89659	0.066

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20627	0.198
17DAP/reference	0.98233	0.594
27DAP/reference	0.91632	0.24
39DAP/reference	0.99992	0.642
41DAP/reference	0.97108	0.451
42DAP/reference	0.89177	0.05
43DAP/reference	1.11094	0.417
47DAP/reference	0.89801	0.105
52DAP/reference	1.02264	0.882
57DAP/reference	1.06445	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12834	0.23
17DAP/reference	0.99787	0.839
27DAP/reference	1.08167	0.596
39DAP/reference	0.96403	0.393
41DAP/reference	1.03529	0.889
42DAP/reference	0.78008	0.041
43DAP/reference	0.83089	0.037
47DAP/reference	0.96142	0.434
52DAP/reference	1.08368	1
57DAP/reference	0.83804	0.052

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.95691	1
26DAP/20DAP	1.26761	0.312
34DAP/26DAP	1.12866	0.819
51DAP/34DAP	1.11162	0.719
52DAP/51DAP	1.12712	0.503
53DAP/52DAP	0.96874	0.835
55DAP/53DAP	1.15409	0.429
57DAP/55DAP	1.15194	0.376
62DAP/57DAP	1.0281	1
68DAP/62DAP	0.86589	0.668
68DAP/14DAP	1.06299	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.03652	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.62193
Mature Green Tomato/Ripe Tomato	0.43987	0.02
Immature Eggplant/Mature Eggplant	1.01097	0.683
Ripe Pepper/Ripe Tomato	1.43809	1
Mature Eggplant/Ripe Tomato	0.9198	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02708	0.877
1-1-2/M82	0.85175
12-2/M82	0.94952
12-4/M82	1.02556	1
1-3/M82	N/A	N/A
2-1-1/M82	0.96523
2-1/M82	2.1586
2-6/M82	1.16488	0.505
3-2/M82	0.75113
4-1-1/M82	0.88363	0.959
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	1.28013	0.268
5-3/M82	0.99519	1
6-2/M82	1.11338
6-3/M82	0.78358	1
7-1/M82	1.21864
7-2/M82	N/A	N/A
9-3-2/M82	1.1098

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.65256
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.46989
WT/WTpooled	0.95343	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	1.22518	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06554	0.921
DC3000/delta hrp 6h	1.01884	1
DC3000/delta hrp 12h	0.95708	1
DC3000/delta hrp 24h	1.14411	0.123

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	1.39295	0.363

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.13826	0.254
Exp 36h	1.72273	0.371
Exp 60h	1.4508	0.283

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

hybridization	ratio	FDR (corrected p value)
self-self	0.91932	1
Var 0h	1.51915	0.98
Var 12h I row2-row1	1.21709	0.216
Var 12h NI row2-row1	1.33795	0.649
Var 36h I row2-row1	1.00613	1
Var 36h NI row2-row1	0.94465	0.706
Var 60h I row2-row1	0.8393	0.285
Var 60h NI row2-row1	0.86677	0.351
Time course 0hI-0hNI	1.10913	0.63
Time course 12hI-12hNI	1.81811	0.005
Time course 36hI-36hNI	2.07875	0.005
Time course 60hI-60hNI	2.97615	0.008

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)	0.957	0.409
transgenic ySAMdc/azygous control (breaker)	0.60992	0.131
transgenic ySAMdc/azygous control (red)	0.94003	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98282	0.277

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.81774	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83034	1
Manapal/WT (break)	0.82474	1
Manapal/WT (red)	0.50474	0.181