Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.15.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.14119	0.786
27DAP/17DAP	0.95507	0.922
39DAP/27DAP	1.03251	0.899
41DAP/39DAP	0.97213	0.785
42DAP/41DAP	0.97096	1
43DAP/42DAP	0.90977	0.795
47DAP/43DAP	0.63336	0.127
52DAP/47DAP	1.1486	0.791
57DAP/52DAP	1.20256	0.849

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16643	0.101
17DAP/reference	1.07104	0.508
27DAP/reference	1.05349	0.569
39DAP/reference	1.08624	0.386
41DAP/reference	1.16632	0.102
42DAP/reference	1.02077	1
43DAP/reference	1.09781	0.34
47DAP/reference	1.08466	0.027
52DAP/reference	0.87449	0.062
57DAP/reference	0.86642	0.042

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06385	0.63
27DAP/17DAP	0.91748	0.614
39DAP/27DAP	1.02886	0.751
41DAP/39DAP	1.05045	0.895
42DAP/41DAP	1.07415	0.601
43DAP/42DAP	0.86659	0.043
47DAP/43DAP	1.03	0.939
52DAP/47DAP	0.91385	0.433
57DAP/52DAP	0.97369	0.756
57DAP/7DAP	0.863	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82017	0.073
17DAP/reference	1.08934	0.627
27DAP/reference	0.95903	0.348
39DAP/reference	1.1402	0.198
41DAP/reference	0.96615	0.512
42DAP/reference	1.19651	0.174
43DAP/reference	0.93229	0.266
47DAP/reference	0.94318	0.383
52DAP/reference	0.97345	0.363
57DAP/reference	0.83918	0.025

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01959	0.842
17DAP/reference	1.25437	0.07
27DAP/reference	1.12173	0.23
39DAP/reference	1.20558	0.059
41DAP/reference	1.02613	1
42DAP/reference	1.0859	0.915
43DAP/reference	1.43409	0.026
47DAP/reference	1.24929	0.013
52DAP/reference	1.27024	0.009
57DAP/reference	1.22988	0.039

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.02154	1
17DAP/reference	1.02381	1
27DAP/reference	1.10177	0.271
39DAP/reference	1.06206	0.752
41DAP/reference	1.02306	1
42DAP/reference	1.1111	0.279
43DAP/reference	0.98677	0.66
47DAP/reference	1.1471	0.12
52DAP/reference	0.95182	0.464
57DAP/reference	1.02509	0.991

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89915	1
26DAP/20DAP	1.61857	0.107
34DAP/26DAP	1.17489	0.819
51DAP/34DAP	0.9817	0.863
52DAP/51DAP	0.87839	1
53DAP/52DAP	0.77932	0.19
55DAP/53DAP	0.92334	0.619
57DAP/55DAP	1.49886	0.34
62DAP/57DAP	0.99646	0.994
68DAP/62DAP	0.87924	0.641
68DAP/14DAP	0.40937

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.74936	0.015

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.21114	0.417
Mature Green Tomato/Ripe Tomato	1.6088	0.095
Immature Eggplant/Mature Eggplant	1.03226	0.528
Ripe Pepper/Ripe Tomato	0.76079	0.224
Mature Eggplant/Ripe Tomato	0.60553	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.07451	0.877
1-1-2/M82	1.11723	1
12-2/M82	0.9544
12-4/M82	1.21056	1
1-3/M82	0.90749	1
2-1-1/M82	N/A	N/A
2-1/M82	1.05642	1
2-6/M82	0.9892	1
3-2/M82	0.52493
4-1-1/M82	1.23421	1
4-1/M82	0.98438	1
4-3-2/M82	1.22748	0.284
4-3/M82	1.55611	1
5-3/M82	1.05172	1
6-2/M82	1.1552
6-3/M82	0.90768
7-1/M82	N/A	N/A
7-2/M82	0.94152	0.599
9-3-2/M82	1.08893	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.80904
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	0.93015	0.699
WT/WTpooled	N/A	N/A

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	0.92626	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.93776	1
DC3000/delta hrp 6h	1.28373	1
DC3000/delta hrp 12h	1.04523	1
DC3000/delta hrp 24h	1.05213	0.516

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.12634	0.121
DC3000 delta B/DC3000 delta AB	1.54747	0.115

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.52389	1
Exp 36h	0.88417	0.749
Exp 60h	0.90808	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9921	1
Var 0h	N/A	N/A
Var 12h I row2-row1	0.94403	0.856
Var 12h NI row2-row1	1.12211	1
Var 36h I row2-row1	1.08278	1
Var 36h NI row2-row1	1.03488	1
Var 60h I row2-row1	0.81566	0.306
Var 60h NI row2-row1	0.87121	0.69
Time course 0hI-0hNI	0.91836	0.427
Time course 12hI-12hNI	0.97333	0.815
Time course 36hI-36hNI	1.12976	0.07
Time course 60hI-60hNI	0.89758	0.161

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)	0.89189	0.348
transgenic ySAMdc/azygous control (breaker)	0.95961	1
transgenic ySAMdc/azygous control (red)	1.12211	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97766	0.153

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.34249	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.06067	1
Manapal/WT (break)	1.034	1
Manapal/WT (red)	1.28638	1