Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.16.17

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.79138	0.162
27DAP/17DAP	0.73917	0.217
39DAP/27DAP	1.08492	1
41DAP/39DAP	1.18829	0.735
42DAP/41DAP	1.17972	0.938
43DAP/42DAP	1.14284	0.993
47DAP/43DAP	1.29792	0.756
52DAP/47DAP	0.95118	0.821
57DAP/52DAP	1.09669	0.98

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0406	0.46
17DAP/reference	0.90309	0.104
27DAP/reference	1.04907	0.623
39DAP/reference	0.82558	0.174
41DAP/reference	0.8527	0.201
42DAP/reference	0.85309	0.003
43DAP/reference	1.01745	0.838
47DAP/reference	0.92252	0.191
52DAP/reference	1.03326	0.991
57DAP/reference	1.17386	0.061

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.73603	0.135
27DAP/17DAP	0.86019	0.648
39DAP/27DAP	0.88212	0.514
41DAP/39DAP	0.67839	0.645
42DAP/41DAP	0.93101	0.644
43DAP/42DAP	0.98084	0.902
47DAP/43DAP	1.12346	0.699
52DAP/47DAP	0.89601	0.634
57DAP/52DAP	0.94206	0.519
57DAP/7DAP	1.73312	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97226	0.495
17DAP/reference	0.87674	0.124
27DAP/reference	0.91681	0.348
39DAP/reference	1.01575	1
41DAP/reference	1.20681	0.117
42DAP/reference	1.00736	1
43DAP/reference	1.05253	0.923
47DAP/reference	1.11317	0.421
52DAP/reference	1.08181	0.428
57DAP/reference	1.02022	0.799

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96552	0.592
17DAP/reference	0.80708	0.03
27DAP/reference	0.85293	0.051
39DAP/reference	0.87322	0.028
41DAP/reference	0.93042	0.164
42DAP/reference	0.87477	0.108
43DAP/reference	0.86606	0.191
47DAP/reference	0.883	0.037
52DAP/reference	0.83129	0.011
57DAP/reference	0.85101	0.037

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3078	0.296
17DAP/reference	1.04325	0.932
27DAP/reference	1.22902	0.043
39DAP/reference	1.04303	0.578
41DAP/reference	1.08517	0.674
42DAP/reference	1.16438	0.347
43DAP/reference	0.92302	0.256
47DAP/reference	1.05796	0.655
52DAP/reference	1.14509	0.473
57DAP/reference	1.25167	0.029

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.09448	0.586
26DAP/20DAP	2.02389	0.097
34DAP/26DAP	0.94836	0.834
51DAP/34DAP	1.17447	0.207
52DAP/51DAP	0.99046	1
53DAP/52DAP	1.05548	0.753
55DAP/53DAP	1.06529	0.994
57DAP/55DAP	1.29381	0.728
62DAP/57DAP	1.16903	0.35
68DAP/62DAP	1.22857	0.616
68DAP/14DAP	1.66016	0.02

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.35515	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.02594	0.666
Mature Green Tomato/Ripe Tomato	1.39407
Immature Eggplant/Mature Eggplant	1.40111
Ripe Pepper/Ripe Tomato	3.77596	1
Mature Eggplant/Ripe Tomato	2.25371	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.0857
12-2/M82	N/A	N/A
12-4/M82	0.79832
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	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.97307	0.395
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	N/A	N/A
IL2-6/WTpooled	0.94334
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.98667
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	2.04629	0.874

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	0.96762	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11471	0.914
DC3000/delta hrp 6h	1.23095	1
DC3000/delta hrp 12h	0.979	1
DC3000/delta hrp 24h	0.85397	0.052

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	0.92287	1
Exp 36h	1.13944	1
Exp 60h	1.06716	0.563

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

hybridization	ratio	FDR (corrected p value)
self-self	1.07203	1
Var 0h	0.8603	0.457
Var 12h I row2-row1	1.02237	0.736
Var 12h NI row2-row1	1.0316	0.649
Var 36h I row2-row1	0.97659	1
Var 36h NI row2-row1	1.06623	1
Var 60h I row2-row1	1.03003	0.502
Var 60h NI row2-row1	1.02636	1
Time course 0hI-0hNI	1.77058	0.852
Time course 12hI-12hNI	1.07864	0.181
Time course 36hI-36hNI	1.00805	0.798
Time course 60hI-60hNI	0.6476	0.007

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)	1.27086	0.339
transgenic ySAMdc/azygous control (breaker)	0.74037	0.15
transgenic ySAMdc/azygous control (red)	1.15924	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.04997	0.194

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88486	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.99023	1
Manapal/WT (break)	1.20758	0.381
Manapal/WT (red)	1.03192	1