Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.6.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98968	0.713
27DAP/17DAP	1.44835	0.613
39DAP/27DAP	0.78227	0.495
41DAP/39DAP	1.16089	0.58
42DAP/41DAP	1.00318	1
43DAP/42DAP	1.22849	0.538
47DAP/43DAP	0.98521	0.895
52DAP/47DAP	0.82936	0.543
57DAP/52DAP	1.21166	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77735	0.068
17DAP/reference	1.04591	0.675
27DAP/reference	0.74217	0.041
39DAP/reference	1.28609	0.021
41DAP/reference	1.04307	0.451
42DAP/reference	1.10335	0.338
43DAP/reference	1.16205	0.382
47DAP/reference	0.93093	0.242
52DAP/reference	0.86752	0.183
57DAP/reference	0.94658	0.395

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89514	0.484
27DAP/17DAP	1.08875	0.923
39DAP/27DAP	0.77363	0.093
41DAP/39DAP	1.06112	0.883
42DAP/41DAP	0.97322	0.752
43DAP/42DAP	1.05401	0.699
47DAP/43DAP	1.00484	0.99
52DAP/47DAP	0.89736	0.677
57DAP/52DAP	1.01619	1
57DAP/7DAP	0.61105

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82413	0.066
17DAP/reference	0.96803	0.338
27DAP/reference	0.81726	0.062
39DAP/reference	0.87011	0.126
41DAP/reference	0.86842	0.203
42DAP/reference	0.82642	0.021
43DAP/reference	0.96311	0.48
47DAP/reference	0.7827	0.128
52DAP/reference	0.87828	0.15
57DAP/reference	1.01981	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93056	0.487
17DAP/reference	0.73842	0.017
27DAP/reference	0.88376	0.16
39DAP/reference	0.95608	0.392
41DAP/reference	0.81371	0.115
42DAP/reference	0.85724	0.121
43DAP/reference	1.09159	0.977
47DAP/reference	0.81694	0.017
52DAP/reference	0.92736	0.327
57DAP/reference	0.80282	0.107

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94511	0.489
17DAP/reference	0.99497	0.825
27DAP/reference	0.98149	0.657
39DAP/reference	0.88309	0.271
41DAP/reference	0.8917	0.185
42DAP/reference	1.05298	0.818
43DAP/reference	1.18583	0.214
47DAP/reference	1.17436	0.093
52DAP/reference	0.65669	0.062
57DAP/reference	0.74711	0.028

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96097	1
26DAP/20DAP	1.25303	0.315
34DAP/26DAP	1.41696	0.542
51DAP/34DAP	0.90366	0.688
52DAP/51DAP	1.42486	0.049
53DAP/52DAP	0.93238	0.797
55DAP/53DAP	1.12141	0.712
57DAP/55DAP	0.76473	0.309
62DAP/57DAP	1.35725	0.767
68DAP/62DAP	0.87144	0.81
68DAP/14DAP	1.15353

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.13681	0.285

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	7.76975	0.058
Mature Green Tomato/Ripe Tomato	0.87449	0.411
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	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	1.23484
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	1.13235
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	1.2447
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	1.06409
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	1.10385	1
WT/WTpooled	0.49176

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	0.86675	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95359	1
DC3000/delta hrp 6h	1.08929	0.95
DC3000/delta hrp 12h	1.13252	1
DC3000/delta hrp 24h	0.79	0.124

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	0.63789	0.328
Exp 36h	0.57098	0.406
Exp 60h	0.50083	0.249

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.96285	0.933
Var 12h I row2-row1	0.90176
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	0.99924	1
Var 36h NI row2-row1	0.86652
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	1.11465
Time course 0hI-0hNI	0.92804	0.799
Time course 12hI-12hNI	0.9146	0.362
Time course 36hI-36hNI	0.85998	0.136
Time course 60hI-60hNI	0.70736	0.015

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)	0.76122	0.614
transgenic ySAMdc/azygous control (breaker)	2.11418	0.178
transgenic ySAMdc/azygous control (red)	1.182	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97086	0.227

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)	1.12089	1
Manapal/WT (red)	N/A	N/A