Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.12.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.76862	0.249
27DAP/17DAP	1.30556	0.829
39DAP/27DAP	2.77629	0.128
41DAP/39DAP	0.91396	0.636
42DAP/41DAP	1.34087	0.527
43DAP/42DAP	0.73687	0.554
47DAP/43DAP	1.22264	0.4
52DAP/47DAP	0.68499	0.214
57DAP/52DAP	1.19924	0.935

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34356	0.207
17DAP/reference	0.5331	0.007
27DAP/reference	0.60192	0.016
39DAP/reference	0.68294	0.029
41DAP/reference	0.57724	0.01
42DAP/reference	0.91642	0.088
43DAP/reference	1.14223	0.287
47DAP/reference	1.1683	0.069
52DAP/reference	0.68904	0.017
57DAP/reference	1.03055	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.46662	0.041
27DAP/17DAP	1.23897	0.706
39DAP/27DAP	2.95607	0.034
41DAP/39DAP	1.31724	0.06
42DAP/41DAP	1.01573	1
43DAP/42DAP	1.09226	0.134
47DAP/43DAP	1.20664	0.036
52DAP/47DAP	0.69868	0.078
57DAP/52DAP	0.61419	0.152
57DAP/7DAP	0.90312	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.36203	0.039
17DAP/reference	0.93823	0.144
27DAP/reference	1.08638	0.03
39DAP/reference	0.75796	0.014
41DAP/reference	0.78182	0.023
42DAP/reference	0.8851	0.123
43DAP/reference	0.89395	0.069
47DAP/reference	0.9923	1
52DAP/reference	0.90661	0.137
57DAP/reference	0.76446	0.009

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.27694	0.144
17DAP/reference	0.56874	0.003
27DAP/reference	0.75855	0.071
39DAP/reference	0.51436	0.016
41DAP/reference	0.56119	0.021
42DAP/reference	0.59042	0.014
43DAP/reference	0.99096	0.581
47DAP/reference	0.94839	0.4
52DAP/reference	0.32422	0.003
57DAP/reference	0.84281	0.068

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.25473	0.329
17DAP/reference	0.74608	0.159
27DAP/reference	0.73574	0.044
39DAP/reference	0.98207	0.591
41DAP/reference	0.8286	0.119
42DAP/reference	0.90145	0.361
43DAP/reference	0.94541	0.449
47DAP/reference	0.64066	0.006
52DAP/reference	1.07229	0.657
57DAP/reference	0.72329	0.024

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.84459	1
26DAP/20DAP	0.89586	1
34DAP/26DAP	1.3857	1
51DAP/34DAP	3.08538	0.041
52DAP/51DAP	0.73716	1
53DAP/52DAP	2.67767	0.085
55DAP/53DAP	0.67965	0.027
57DAP/55DAP	0.86504	0.49
62DAP/57DAP	0.83185	0.28
68DAP/62DAP	0.63723	0.055
68DAP/14DAP	1.22553	0.179

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	2.51533	0.029

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.06825	0.037
Mature Green Tomato/Ripe Tomato	0.59718	0.017
Immature Eggplant/Mature Eggplant	7.53839	0.05
Ripe Pepper/Ripe Tomato	2.21263	0.256
Mature Eggplant/Ripe Tomato	0.35874	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.12742	0.877
1-1-2/M82	1.12814
12-2/M82	1.16686	0.519
12-4/M82	0.93716	0.619
1-3/M82	2.19082	0.26
2-1-1/M82	1.33819	0.689
2-1/M82	0.85947	0.74
2-6/M82	1.7103	0.335
3-2/M82	0.88369
4-1-1/M82	1.31378	0.977
4-1/M82	1.59185	1
4-3-2/M82	1.273	0.508
4-3/M82	1.10597	1
5-3/M82	0.89874	0.642
6-2/M82	1.48542
6-3/M82	0.41641	0.796
7-1/M82	0.96882	1
7-2/M82	1.45145	0.324
9-3-2/M82	2.62273

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.06672	0.788
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.8088	0.294
IL12-4/WTpooled	0.97666	1
IL1-4/WTpooled	2.27421	1
WT/WTpooled	0.97032	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	1.49171	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99322	1
DC3000/delta hrp 6h	1.03316	0.95
DC3000/delta hrp 12h	0.98316	1
DC3000/delta hrp 24h	1.24477	0.182

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	1.37652	0.324

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.2933	1
Exp 36h	2.55238	0.489
Exp 60h	1.60391	0.226

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

hybridization	ratio	FDR (corrected p value)
self-self	1.05099	1
Var 0h	0.74511	1
Var 12h I row2-row1	1.7591	0.222
Var 12h NI row2-row1	4.47418	0.649
Var 36h I row2-row1	1.30163	0.291
Var 36h NI row2-row1	0.75524	0.61
Var 60h I row2-row1	0.98458	1
Var 60h NI row2-row1	0.68232	0.458
Time course 0hI-0hNI	1.10241	0.662
Time course 12hI-12hNI	3.61563	0.005
Time course 36hI-36hNI	7.66272	0.004
Time course 60hI-60hNI	24.6454	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)	0.80054	0.324
transgenic ySAMdc/azygous control (breaker)	1.10591	0.248
transgenic ySAMdc/azygous control (red)	0.92108	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.05694	0.17

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.60759	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.91657	1
Manapal/WT (break)	0.76384	1
Manapal/WT (red)	0.89896	0.315