Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.1.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93841	0.752
27DAP/17DAP	1.33185	0.767
39DAP/27DAP	1.61532	0.157
41DAP/39DAP	0.82699	0.678
42DAP/41DAP	1.59928	0.712
43DAP/42DAP	1.24515	1
47DAP/43DAP	1.3186	0.229
52DAP/47DAP	0.98699	0.934
57DAP/52DAP	1.03986	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92123	0.194
17DAP/reference	0.87973	0.028
27DAP/reference	1.00356	0.923
39DAP/reference	0.99131	0.885
41DAP/reference	0.95929	0.267
42DAP/reference	1.16105	0.003
43DAP/reference	1.25461	0.009
47DAP/reference	1.3558	0.001
52DAP/reference	1.15816	0.407
57DAP/reference	1.40154	0.008

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.89397
27DAP/17DAP	0.80319	0.821
39DAP/27DAP	1.11574
41DAP/39DAP	0.59324
42DAP/41DAP	0.92785	0.666
43DAP/42DAP	0.36209
47DAP/43DAP	0.99912	1
52DAP/47DAP	1.03871	0.991
57DAP/52DAP	N/A	N/A
57DAP/7DAP	1.94298	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.09552	0.263
17DAP/reference	1.02808	0.688
27DAP/reference	1.02357	0.664
39DAP/reference	1.03178	0.411
41DAP/reference	1.0564	0.416
42DAP/reference	1.2284	0.021
43DAP/reference	1.17006	0.226
47DAP/reference	1.24532	0.023
52DAP/reference	1.15166	0.071
57DAP/reference	0.94835	0.064

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93495	0.286
17DAP/reference	0.85206	0.019
27DAP/reference	1.08376	0.404
39DAP/reference	0.89395	0.168
41DAP/reference	0.92624	0.145
42DAP/reference	1.0724	0.715
43DAP/reference	0.99113	0.706
47DAP/reference	0.93732	0.116
52DAP/reference	0.80767	0.004
57DAP/reference	0.83451	0.04

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00711	1
17DAP/reference	0.94708	0.398
27DAP/reference	0.88366	0.056
39DAP/reference	0.98892	0.643
41DAP/reference	0.93588	0.264
42DAP/reference	1.49082	0.01
43DAP/reference	1.61875	0.02
47DAP/reference	1.29722	0.011
52DAP/reference	1.60788	0.033
57DAP/reference	1.96663	0.01

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9835	1
26DAP/20DAP	N/A	N/A
34DAP/26DAP	0.81378
51DAP/34DAP	1.0533	0.988
52DAP/51DAP	N/A	N/A
53DAP/52DAP	0.95422	0.83
55DAP/53DAP	1.3807	0.415
57DAP/55DAP	1.32915	0.407
62DAP/57DAP	1.14839	0.723
68DAP/62DAP	1.05419	1
68DAP/14DAP	0.97762	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.5979	0.415

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.57001	0.124
Mature Green Tomato/Ripe Tomato	0.57919	0.017
Immature Eggplant/Mature Eggplant	0.60271	0.062
Ripe Pepper/Ripe Tomato	0.99845	1
Mature Eggplant/Ripe Tomato	0.6977	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03314	1
1-1-2/M82	0.98305	0.804
12-2/M82	0.97648	0.955
12-4/M82	1.07816	1
1-3/M82	1.32696	0.26
2-1-1/M82	1.00352	1
2-1/M82	1.10191	1
2-6/M82	0.94312	1
3-2/M82	1.02518	1
4-1-1/M82	1.01155	1
4-1/M82	1.3868	0.853
4-3-2/M82	1.2318	0.262
4-3/M82	0.95741	0.72
5-3/M82	1.00473	1
6-2/M82	1.02985	1
6-3/M82	0.96314	1
7-1/M82	1.0071	1
7-2/M82	1.0178	1
9-3-2/M82	1.38154	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.88251	1
IL2-6/WTpooled	0.74596
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.41946
IL12-4/WTpooled	0.45006	0.581
IL1-4/WTpooled	0.99007	1
WT/WTpooled	0.9005	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	1.03468	0.921
DC3000/delta hrp 6h	0.97085	0.95
DC3000/delta hrp 12h	0.9641	1
DC3000/delta hrp 24h	1.52461	0.025

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	1.3143	1
Exp 36h	1.5747	0.693
Exp 60h	1.6051	0.399

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	N/A	N/A
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	N/A	N/A
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.09427	0.699
transgenic ySAMdc/azygous control (breaker)	1.03673	0.248
transgenic ySAMdc/azygous control (red)	1.05052	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.28143	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.22015	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.04699	0.096
Manapal/WT (break)	1.02	1
Manapal/WT (red)	0.79321	0.181