Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.4.12.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.45279	0.255
27DAP/17DAP	0.86969	0.694
39DAP/27DAP	1.28635	0.361
41DAP/39DAP	1.04274	0.985
42DAP/41DAP	0.78418	0.774
43DAP/42DAP	1.03247	0.937
47DAP/43DAP	1.08071	0.689
52DAP/47DAP	1.24372	0.906
57DAP/52DAP	0.94941	0.938

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.34148	0.007
17DAP/reference	1.13066	0.083
27DAP/reference	1.20682	0.019
39DAP/reference	1.03513	0.359
41DAP/reference	1.03156	0.963
42DAP/reference	0.82609	0.004
43DAP/reference	0.92117	0.17
47DAP/reference	0.85503	0.025
52DAP/reference	0.84119	0.043
57DAP/reference	0.85886	0.019

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03222	0.899
27DAP/17DAP	0.9177	0.446
39DAP/27DAP	0.98359	0.908
41DAP/39DAP	1.10853	0.663
42DAP/41DAP	0.9829	0.797
43DAP/42DAP	0.90368	0.367
47DAP/43DAP	0.98025	0.911
52DAP/47DAP	1.01925	0.979
57DAP/52DAP	0.89755	0.311
57DAP/7DAP	0.92268	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06532	0.761
17DAP/reference	1.08422	0.059
27DAP/reference	1.01341	1
39DAP/reference	0.80582	0.264
41DAP/reference	0.99504	0.709
42DAP/reference	0.9226	0.189
43DAP/reference	1.01645	1
47DAP/reference	1.26185	0.247
52DAP/reference	1.01831	1
57DAP/reference	1.01599	1

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.29547	0.12
17DAP/reference	1.37657	0.026
27DAP/reference	1.18946	0.23
39DAP/reference	1.03921	0.725
41DAP/reference	0.87278	0.059
42DAP/reference	0.95913	0.392
43DAP/reference	0.91413	0.236
47DAP/reference	0.91798	0.107
52DAP/reference	0.97204	0.327
57DAP/reference	1.12649	0.236

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04616	0.882
17DAP/reference	1.02675	0.689
27DAP/reference	1.03541	0.749
39DAP/reference	1.02122	0.711
41DAP/reference	1.08605	0.605
42DAP/reference	0.92245	0.134
43DAP/reference	0.85654	0.158
47DAP/reference	0.77016	0.007
52DAP/reference	0.78284	0.072
57DAP/reference	0.79398	0.06

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.97992	1
26DAP/20DAP	0.95769	1
34DAP/26DAP	0.99481	1
51DAP/34DAP	1.02759	0.869
52DAP/51DAP	1.11933	0.349
53DAP/52DAP	1.06138	0.768
55DAP/53DAP	1.07297	0.562
57DAP/55DAP	0.86912	0.268
62DAP/57DAP	1.13225	0.081
68DAP/62DAP	1.06425	0.831
68DAP/14DAP	0.97655	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.12464	0.326

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.60223	0.058
Mature Green Tomato/Ripe Tomato	3.33818	0.015
Immature Eggplant/Mature Eggplant	1.369	0.05
Ripe Pepper/Ripe Tomato	0.71679	1
Mature Eggplant/Ripe Tomato	11.5809	0.26

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	0.685
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	0.88529
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.71844
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	0.97816	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.90114	1
IL7-5/WTpooled	27.9298
IL7-3/WTpooled	0.94998	1
IL12-4/WTpooled	1.01928	1
IL1-4/WTpooled	0.79356	0.444
WT/WTpooled	1.08049	0.789

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	1.06052	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91917	1
DC3000/delta hrp 6h	0.88073	0.95
DC3000/delta hrp 12h	1.13313	1
DC3000/delta hrp 24h	0.88956	0.212

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.02241	0.648
DC3000 delta B/DC3000 delta AB	1.00403	0.771

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.24241	1
Exp 36h	1.2361	1
Exp 60h	1.30027	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99781	1
Var 0h	1.01454	1
Var 12h I row2-row1	1.13359	0.613
Var 12h NI row2-row1	1.08788	0.649
Var 36h I row2-row1	0.90062	1
Var 36h NI row2-row1	1.82927	1
Var 60h I row2-row1	1.26287	1
Var 60h NI row2-row1	1.08481	0.904
Time course 0hI-0hNI	1.02666	0.852
Time course 12hI-12hNI	0.91739	0.142
Time course 36hI-36hNI	0.7891	0.023
Time course 60hI-60hNI	0.90471	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)	1.12839	0.238
transgenic ySAMdc/azygous control (breaker)	0.77824	0.173
transgenic ySAMdc/azygous control (red)	0.9729	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.00319	0.909

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.10641	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.0721	1
Manapal/WT (break)	1.04721	1
Manapal/WT (red)	0.92865	0.863