Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.14.14

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.41247	0.63
27DAP/17DAP	0.4103	0.04
39DAP/27DAP	1.00001	0.769
41DAP/39DAP	0.55314	0.08
42DAP/41DAP	0.88909	1
43DAP/42DAP	1.21555	0.831
47DAP/43DAP	1.04764	0.835
52DAP/47DAP	0.8898	0.685
57DAP/52DAP	1.12345	0.963

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.69882	0.036
17DAP/reference	0.78855	0.12
27DAP/reference	N/A	N/A
39DAP/reference	1.21521	0.474
41DAP/reference	1.60721	0.012
42DAP/reference	1.30869	0.014
43DAP/reference	N/A	N/A
47DAP/reference	1.35595	0.012
52DAP/reference	N/A	N/A
57DAP/reference	2.06494

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.38904
27DAP/17DAP	1.97754
39DAP/27DAP	1.10247
41DAP/39DAP	0.44093
42DAP/41DAP	1.08743	0.936
43DAP/42DAP	N/A	N/A
47DAP/43DAP	0.67756	0.365
52DAP/47DAP	0.62781	0.186
57DAP/52DAP	1.1765	1
57DAP/7DAP	1.24097

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.19476	0.112
17DAP/reference	1.02319	1
27DAP/reference	0.79754	0.031
39DAP/reference	0.93863	0.23
41DAP/reference	0.88096	0.139
42DAP/reference	0.82137	0.106
43DAP/reference	0.70639	0.014
47DAP/reference	1.05741	0.671
52DAP/reference	0.71469	0.015
57DAP/reference	0.6128	0.007

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91395	0.639
17DAP/reference	1.22998	0.806
27DAP/reference	0.78308	0.104
39DAP/reference	N/A	N/A
41DAP/reference	1.05456	0.562
42DAP/reference	1.18142	0.915
43DAP/reference	1.40092	0.774
47DAP/reference	1.34992	0.556
52DAP/reference	1.61119
57DAP/reference	0.4868	0.043

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.75534	0.015
17DAP/reference	1.50796	0.405
27DAP/reference	1.19213	0.115
39DAP/reference	1.11471	0.189
41DAP/reference	0.8497	0.055
42DAP/reference	0.72762	0.071
43DAP/reference	1.06519	0.614
47DAP/reference	1.01935	0.687
52DAP/reference	0.76803	0.22
57DAP/reference	1.40282	0.092

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.65223	0.328
26DAP/20DAP	1.22732
34DAP/26DAP	0.93946	0.945
51DAP/34DAP	1.33752	0.692
52DAP/51DAP	1.84919	0.676
53DAP/52DAP	1.01745	0.97
55DAP/53DAP	0.77788
57DAP/55DAP	0.55131
62DAP/57DAP	1.86398	0.303
68DAP/62DAP	N/A	N/A
68DAP/14DAP	1.6188	0.139

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.77612	0.74

Experiment: Solanaceae fruit comparison

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

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
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	2.28357
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	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
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	1.49284	0.277
IL2-6/WTpooled	0.99314	1
IL7-5/WTpooled	1.25126	0.75
IL7-3/WTpooled	1.20321	0.362
IL12-4/WTpooled	1.60602	0.695
IL1-4/WTpooled	0.98774	1
WT/WTpooled	0.90752	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.9882	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.58812	0.034

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	0.99391	1
Var 0h	0.91394	1
Var 12h I row2-row1	0.73944	0.467
Var 12h NI row2-row1	1.08353	1
Var 36h I row2-row1	1.04731	1
Var 36h NI row2-row1	0.9712	0.791
Var 60h I row2-row1	1.09207	1
Var 60h NI row2-row1	1.0811	1
Time course 0hI-0hNI	0.97478	0.945
Time course 12hI-12hNI	0.85586	0.117
Time course 36hI-36hNI	0.90903	0.206
Time course 60hI-60hNI	0.22743	0.006

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

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	N/A	N/A

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)	1.5689	1
Manapal/WT (red)	1.27722	0.15