Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.6.20

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90907	0.586
27DAP/17DAP	0.78836	0.547
39DAP/27DAP	0.89239	0.583
41DAP/39DAP	1.45879	0.904
42DAP/41DAP	1.28131	0.899
43DAP/42DAP	0.93282	0.877
47DAP/43DAP	1.00245	0.84
52DAP/47DAP	1.12579	0.989
57DAP/52DAP	0.76955	0.869

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28715	0.05
17DAP/reference	1.03659	0.606
27DAP/reference	1.15774	0.02
39DAP/reference	1.01994	0.828
41DAP/reference	0.99105	0.814
42DAP/reference	1.20962	0.055
43DAP/reference	1.09843	0.382
47DAP/reference	1.11592	0.254
52DAP/reference	1.53954	0.012
57DAP/reference	1.46577	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93123	0.415
27DAP/17DAP	1.16895	0.685
39DAP/27DAP	1.04689	0.751
41DAP/39DAP	1.04139	0.921
42DAP/41DAP	0.93843	0.56
43DAP/42DAP	0.72881	0.025
47DAP/43DAP	0.89092	0.188
52DAP/47DAP	2.0821	0.048
57DAP/52DAP	2.31023	0.053
57DAP/7DAP	0.17384	0.186

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92595	0.296
17DAP/reference	0.7086	0.011
27DAP/reference	0.79804	0.03
39DAP/reference	0.78104	0.013
41DAP/reference	0.79666	0.047
42DAP/reference	0.82113	0.073
43DAP/reference	0.84864	0.132
47DAP/reference	1.07974	1
52DAP/reference	0.86335	0.15
57DAP/reference	0.88839	0.144

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90661	0.342
17DAP/reference	0.66581	0.005
27DAP/reference	1.05517	0.595
39DAP/reference	1.32825	0.066
41DAP/reference	1.16502	0.228
42DAP/reference	1.22	0.038
43DAP/reference	0.90449	0.344
47DAP/reference	1.07985	0.247
52DAP/reference	1.05834	0.629
57DAP/reference	0.96715	0.519

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.81803	0.033
17DAP/reference	0.8891	0.186
27DAP/reference	0.82838	0.063
39DAP/reference	0.81072	0.006
41DAP/reference	0.88283	0.167
42DAP/reference	0.90666	0.361
43DAP/reference	1.03014	1
47DAP/reference	1.17957	0.06
52DAP/reference	0.89567	0.482
57DAP/reference	1.82172	0.011

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.47707	0.966
26DAP/20DAP	3.59855	0.285
34DAP/26DAP	2.62752	1
51DAP/34DAP	1.90423	0.73
52DAP/51DAP	2.76642	0.034
53DAP/52DAP	0.90338	0.553
55DAP/53DAP	1.76732	0.047
57DAP/55DAP	0.39474	0.019
62DAP/57DAP	1.32181	0.569
68DAP/62DAP	1.8527	0.076
68DAP/14DAP	2.78721	0.022

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.22994	0.019

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	7.09751	0.038
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	1.37216

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	N/A	N/A
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	1.04871	1
IL2-6/WTpooled	1.01918	1
IL7-5/WTpooled	0.73772	1
IL7-3/WTpooled	1.04479	1
IL12-4/WTpooled	0.7839	0.554
IL1-4/WTpooled	1.02057	1
WT/WTpooled	0.96557	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	0.92446	0.497

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.88872	1
DC3000/delta hrp 6h	1.03919
DC3000/delta hrp 12h	1.01213
DC3000/delta hrp 24h	5.97803	0.022

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.29414	0.25
DC3000 delta B/DC3000 delta AB	1.37802	0.279

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.7569	0.245
Exp 36h	1.59674	1
Exp 60h	0.85921	0.522

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

hybridization	ratio	FDR (corrected p value)
self-self	1.00249	1
Var 0h	0.4226	0.933
Var 12h I row2-row1	0.80811	0.565
Var 12h NI row2-row1	0.97108	0.906
Var 36h I row2-row1	0.92344	1
Var 36h NI row2-row1	1.32359	0.482
Var 60h I row2-row1	0.99036	1
Var 60h NI row2-row1	1.06962	1
Time course 0hI-0hNI	0.95594	0.765
Time course 12hI-12hNI	0.94633	0.698
Time course 36hI-36hNI	0.76871	0.034
Time course 60hI-60hNI	0.29961	0.005

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)	1.06346	0.408
transgenic ySAMdc/azygous control (breaker)	0.7234	0.142
transgenic ySAMdc/azygous control (red)	0.83528	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95565	0.444

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)	1.23622	0.14
Manapal/WT (break)	0.90327	1
Manapal/WT (red)	1.19299	0.222