Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.2.3.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.44678	0.602
27DAP/17DAP	1.28807	0.747
39DAP/27DAP	0.81953	0.443
41DAP/39DAP	1.20625	0.591
42DAP/41DAP	1.17329	0.929
43DAP/42DAP	1.03691	0.94
47DAP/43DAP	1.39685	0.349
52DAP/47DAP	0.80377	0.507
57DAP/52DAP	1.15085	0.948

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14365	0.611
17DAP/reference	0.9358	0.503
27DAP/reference	0.95666	0.567
39DAP/reference	1.11247	0.581
41DAP/reference	1.22134	0.043
42DAP/reference	0.8544	0.037
43DAP/reference	0.90191	0.259
47DAP/reference	0.90893	0.046
52DAP/reference	1.35401	0.176
57DAP/reference	1.09731	0.153

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.18963	0.482
27DAP/17DAP	1.01357	0.973
39DAP/27DAP	1.29125	0.096
41DAP/39DAP	0.96847	0.959
42DAP/41DAP	1.01597	0.882
43DAP/42DAP	1.06109	0.627
47DAP/43DAP	1.05243	0.833
52DAP/47DAP	0.84964	0.645
57DAP/52DAP	0.9999	0.875
57DAP/7DAP	1.13389	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14978	0.231
17DAP/reference	1.45816	0.013
27DAP/reference	1.54137	0.02
39DAP/reference	1.39052	0.024
41DAP/reference	1.30455	0.016
42DAP/reference	1.41222	0.009
43DAP/reference	1.51928	0.008
47DAP/reference	0.90825	0.504
52DAP/reference	1.4218	0.086
57DAP/reference	1.41749	0.024

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98094	0.756
17DAP/reference	1.11769	0.756
27DAP/reference	1.16839	0.053
39DAP/reference	1.13629	0.15
41DAP/reference	0.98109	0.519
42DAP/reference	1.10071	0.476
43DAP/reference	1.09892	0.874
47DAP/reference	0.88343	0.046
52DAP/reference	1.13137	0.223
57DAP/reference	1.07608	0.705

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26624	0.063
17DAP/reference	1.11294	0.824
27DAP/reference	1.77978	0.027
39DAP/reference	1.55242	0.024
41DAP/reference	1.57969	0.013
42DAP/reference	1.21397	0.658
43DAP/reference	1.28748	0.071
47DAP/reference	0.9649	0.396
52DAP/reference	1.37298	0.179
57DAP/reference	1.54126	0.03

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02202	0.966
26DAP/20DAP	0.77684	0.512
34DAP/26DAP	1.14005	0.819
51DAP/34DAP	0.76829	0.06
52DAP/51DAP	0.9665	0.151
53DAP/52DAP	1.0201	1
55DAP/53DAP	0.93271	0.675
57DAP/55DAP	1.00466	0.923
62DAP/57DAP	0.929	0.871
68DAP/62DAP	1.24144	0.174
68DAP/14DAP	1.18334	0.578

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.73606	0.062

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.88049	0.347
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.17557

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.74867
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.84476
4-3/M82	N/A	N/A
5-3/M82	1.78565
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95903	1
IL2-6/WTpooled	1.16111	0.361
IL7-5/WTpooled	0.7177	1
IL7-3/WTpooled	1.11431	1
IL12-4/WTpooled	1.13687	0.737
IL1-4/WTpooled	0.85286	0.562
WT/WTpooled	0.99697	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	1.19881	0.148

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.56252
DC3000/delta hrp 6h	1.0805	1
DC3000/delta hrp 12h	1.07922	1
DC3000/delta hrp 24h	1.09073	0.728

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.90518
Var 0h	0.83506	0.933
Var 12h I row2-row1	1.2647	0.443
Var 12h NI row2-row1	1.10448	0.161
Var 36h I row2-row1	1.02804	1
Var 36h NI row2-row1	0.74138
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.08052	1
Time course 0hI-0hNI	0.9857	0.93
Time course 12hI-12hNI	1.07829	0.687
Time course 36hI-36hNI	1.44808	0.015
Time course 60hI-60hNI	1.09232	0.575

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)	0.97264	0.722
transgenic ySAMdc/azygous control (breaker)	1.85918	0.178
transgenic ySAMdc/azygous control (red)	1.41894	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.92261	0.071

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03067	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.26182	0.381
Manapal/WT (red)	1.11901	1