Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.2.17.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.37662	0.709
27DAP/17DAP	1.02245	1
39DAP/27DAP	0.99557	0.769
41DAP/39DAP	1.0321	0.876
42DAP/41DAP	1.11454	0.941
43DAP/42DAP	1.30253	0.756
47DAP/43DAP	0.95987	0.815
52DAP/47DAP	1.37305	0.592
57DAP/52DAP	0.99903	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8884	0.103
17DAP/reference	1.09138	0.258
27DAP/reference	0.99377	0.797
39DAP/reference	1.11027	0.122
41DAP/reference	1.09718	0.421
42DAP/reference	0.88386	0.008
43DAP/reference	1.04569	0.471
47DAP/reference	0.93316	0.046
52DAP/reference	0.8815	0.102
57DAP/reference	0.81818	0.027

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.88536	0.336
27DAP/17DAP	0.77728	0.475
39DAP/27DAP	1.01841	1
41DAP/39DAP	1.08638	0.914
42DAP/41DAP	0.86655	0.486
43DAP/42DAP	1.04569	0.83
47DAP/43DAP	1.52088	0.221
52DAP/47DAP	1.0656	0.8
57DAP/52DAP	1.22747	0.138
57DAP/7DAP	2.49086	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85791	0.138
17DAP/reference	1.11265	0.822
27DAP/reference	0.95576	0.283
39DAP/reference	1.01243	1
41DAP/reference	1.08602	1
42DAP/reference	1.23915	0.132
43DAP/reference	1.07268	0.707
47DAP/reference	0.83438	0.168
52DAP/reference	0.8458	0.163
57DAP/reference	0.92849	0.302

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16913	0.516
17DAP/reference	1.10889	0.518
27DAP/reference	0.87398	0.16
39DAP/reference	0.91932	0.243
41DAP/reference	0.94405	0.284
42DAP/reference	0.78242	0.02
43DAP/reference	1.27796	0.077
47DAP/reference	0.94214	0.188
52DAP/reference	1.01226	1
57DAP/reference	1.09765	0.672

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89691	0.183
17DAP/reference	0.92449	0.3
27DAP/reference	1.16827	0.149
39DAP/reference	0.97041	0.544
41DAP/reference	0.9496	0.331
42DAP/reference	0.93447	0.361
43DAP/reference	0.74999	0.052
47DAP/reference	0.96333	0.465
52DAP/reference	0.84445	0.2
57DAP/reference	0.63434	0.019

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.07651	0.966
26DAP/20DAP	1.12557
34DAP/26DAP	0.98673	0.893
51DAP/34DAP	0.80358	0.606
52DAP/51DAP	0.94446	1
53DAP/52DAP	0.81559	0.358
55DAP/53DAP	1.28434	0.196
57DAP/55DAP	0.93703	0.783
62DAP/57DAP	1.18323	0.303
68DAP/62DAP	0.85772	0.579
68DAP/14DAP	0.8438	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9377	0.493

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	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	0.94289	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.94443
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.42425	0.277
IL2-6/WTpooled	1.47109	0.361
IL7-5/WTpooled	0.97255	1
IL7-3/WTpooled	1.04142	0.362
IL12-4/WTpooled	1.40668	0.483
IL1-4/WTpooled	1.02543	1
WT/WTpooled	1.15745	0.763

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	1.09015

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.04589	1
DC3000/delta hrp 6h	0.48319	0.942
DC3000/delta hrp 12h	0.99454	1
DC3000/delta hrp 24h	1.08913	0.356

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	0.93697	1
Exp 36h	1.20868	1
Exp 60h	0.72033	0.266

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	1.02509	0.98
Var 12h I row2-row1	1.18538	0.196
Var 12h NI row2-row1	1.45913	0.649
Var 36h I row2-row1	0.92047	1
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	1.13882	0.543
Var 60h NI row2-row1	0.78419	0.866
Time course 0hI-0hNI	0.91477	0.306
Time course 12hI-12hNI	1.37881	0.36
Time course 36hI-36hNI	0.98652	0.665
Time course 60hI-60hNI	1.58747	0.019

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)	1.5868	0.511
transgenic ySAMdc/azygous control (breaker)	1.16426	1
transgenic ySAMdc/azygous control (red)	1.00812	0.92

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	0.84798	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.96622	1
Manapal/WT (break)	1.65119	0.14
Manapal/WT (red)	1.06734	1