Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.4.17.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.4175	0.017
27DAP/17DAP	0.56789	0.043
39DAP/27DAP	0.68814	0.425
41DAP/39DAP	0.85646	0.478
42DAP/41DAP	1.1092	0.832
43DAP/42DAP	1.19011	0.957
47DAP/43DAP	0.64215	0.107
52DAP/47DAP	0.98697	0.927
57DAP/52DAP	1.51569	0.264

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98962	0.645
17DAP/reference	1.00591	0.907
27DAP/reference	0.92669	0.182
39DAP/reference	0.95551	0.467
41DAP/reference	0.96952	0.542
42DAP/reference	0.90862	0.048
43DAP/reference	0.8607	0.047
47DAP/reference	0.87459	0.009
52DAP/reference	1.1324	0.114
57DAP/reference	1.02206	0.853

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.98278	0.644
27DAP/17DAP	1.04296	0.943
39DAP/27DAP	1.08267	0.707
41DAP/39DAP	1.34528	0.773
42DAP/41DAP	1.19051	0.763
43DAP/42DAP	1.39038	0.351
47DAP/43DAP	1.18727	0.724
52DAP/47DAP	0.94655	0.857
57DAP/52DAP	1.08656	0.703
57DAP/7DAP	0.62464	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23703	0.05
17DAP/reference	1.1784	0.361
27DAP/reference	1.22082	0.03
39DAP/reference	1.02338	1
41DAP/reference	1.18484	0.136
42DAP/reference	1.25944	0.059
43DAP/reference	1.0256	1
47DAP/reference	0.91319	0.293
52DAP/reference	0.91495	0.179
57DAP/reference	1.24565	0.17

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11342	0.926
17DAP/reference	0.87642	0.043
27DAP/reference	0.92228	0.292
39DAP/reference	0.92584	0.25
41DAP/reference	1.02397	1
42DAP/reference	0.97232	0.433
43DAP/reference	0.9864	0.62
47DAP/reference	0.86855	0.022
52DAP/reference	0.98793	0.619
57DAP/reference	0.89044	0.068

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.21929	0.172
17DAP/reference	1.00903	0.932
27DAP/reference	0.97501	0.539
39DAP/reference	1.01819	0.987
41DAP/reference	0.93975	0.371
42DAP/reference	1.03572	0.759
43DAP/reference	1.0474	0.84
47DAP/reference	0.90054	0.084
52DAP/reference	0.96025	0.637
57DAP/reference	1.18825	0.171

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.94574	1
26DAP/20DAP	0.86338	0.512
34DAP/26DAP	1.16856	1
51DAP/34DAP	0.86735
52DAP/51DAP	1.52035	0.503
53DAP/52DAP	1.07126	1
55DAP/53DAP	0.68135	0.21
57DAP/55DAP	0.72194	0.3
62DAP/57DAP	1.18023	0.622
68DAP/62DAP	1.56051	0.037
68DAP/14DAP	1.62194	0.036

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.9879	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	6.99934	0.063
Mature Green Tomato/Ripe Tomato	1.45106
Immature Eggplant/Mature Eggplant	0.35085	0.063
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	0.83721
12-2/M82	N/A	N/A
12-4/M82	0.94744
1-3/M82	N/A	N/A
2-1-1/M82	0.58634
2-1/M82	N/A	N/A
2-6/M82	0.94274	1
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	0.97991
5-3/M82	0.88014	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	0.71231
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.49047	0.277
IL2-6/WTpooled	0.87033	0.473
IL7-5/WTpooled	0.74296	0.559
IL7-3/WTpooled	1.15969	1
IL12-4/WTpooled	1.09099	0.503
IL1-4/WTpooled	0.9427	0.476
WT/WTpooled	1.02011	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	0.98278	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.06292	1
DC3000/delta hrp 24h	1.20505	0.308

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	0.58215	1
Exp 36h	N/A	N/A
Exp 60h	1.06138	0.855

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	0.89128	1
Var 12h I row2-row1	1.10983	0.58
Var 12h NI row2-row1	0.81614	0.141
Var 36h I row2-row1	1.15256	1
Var 36h NI row2-row1	1.01896
Var 60h I row2-row1	1.01821	0.347
Var 60h NI row2-row1	1.08168	0.904
Time course 0hI-0hNI	1.04285	0.63
Time course 12hI-12hNI	1.08504	0.55
Time course 36hI-36hNI	1.05559	1
Time course 60hI-60hNI	0.78399	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)	1.89103	0.268
transgenic ySAMdc/azygous control (breaker)	1.11163	1
transgenic ySAMdc/azygous control (red)	1.03138	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	0.58022	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.14329	1
Manapal/WT (break)	0.95156	1
Manapal/WT (red)	1.15591	0.164