Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.19.1

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04161	0.977
27DAP/17DAP	0.94665	0.86
39DAP/27DAP	2.56269	0.093
41DAP/39DAP	0.94031	0.659
42DAP/41DAP	1.14925	0.929
43DAP/42DAP	0.95508	0.895
47DAP/43DAP	1.21712	0.733
52DAP/47DAP	0.99245	0.774
57DAP/52DAP	1.2596	0.912

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96109	0.352
17DAP/reference	1.08585	0.117
27DAP/reference	1.0119	0.966
39DAP/reference	0.96839	0.554
41DAP/reference	1.01894	0.855
42DAP/reference	0.88593	0.002
43DAP/reference	0.99258	0.82
47DAP/reference	0.92563	0.03
52DAP/reference	0.87883	0.086
57DAP/reference	0.84211	0.062

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06406	0.847
27DAP/17DAP	0.89797	0.782
39DAP/27DAP	1.22583	0.19
41DAP/39DAP	1.212	0.393
42DAP/41DAP	0.91339	0.473
43DAP/42DAP	0.83692	0.137
47DAP/43DAP	1.29814	0.227
52DAP/47DAP	1.03139	0.927
57DAP/52DAP	0.9334	0.537
57DAP/7DAP	1.26059	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86592	0.095
17DAP/reference	0.78125	0.039
27DAP/reference	0.9337	0.248
39DAP/reference	0.75488	0.015
41DAP/reference	0.80827	0.076
42DAP/reference	0.73384	0.029
43DAP/reference	0.6591	0.023
47DAP/reference	0.88515	0.168
52DAP/reference	1.0114	0.523
57DAP/reference	0.92338	0.199

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.96715	0.623
17DAP/reference	0.93197	0.095
27DAP/reference	0.93002	0.304
39DAP/reference	0.95029	0.274
41DAP/reference	0.8954	0.108
42DAP/reference	0.87291	0.089
43DAP/reference	1.04076	0.91
47DAP/reference	0.99951	0.77
52DAP/reference	1.00039	0.761
57DAP/reference	1.05279	0.552

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82596	0.035
17DAP/reference	0.94302	0.47
27DAP/reference	0.84949	0.069
39DAP/reference	0.81106	0.035
41DAP/reference	0.84587	0.086
42DAP/reference	0.76218	0.016
43DAP/reference	0.81463	0.056
47DAP/reference	0.85122	0.028
52DAP/reference	0.75039	0.116
57DAP/reference	0.79635	0.029

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.29043	0.966
26DAP/20DAP	1.14171	0.778
34DAP/26DAP	1.07665	1
51DAP/34DAP	2.62177	0.105
52DAP/51DAP	0.77719	1
53DAP/52DAP	0.83393	0.612
55DAP/53DAP	1.07602	0.904
57DAP/55DAP	1.14802	0.805
62DAP/57DAP	1.13751	0.8
68DAP/62DAP	1.00984	0.939
68DAP/14DAP	1.38746	0.615

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.13908	0.439

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.64926	0.165
Mature Green Tomato/Ripe Tomato	0.81419	0.287
Immature Eggplant/Mature Eggplant	2.02628	0.053
Ripe Pepper/Ripe Tomato	2.63842
Mature Eggplant/Ripe Tomato	2.77703	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.66245	0.402
1-1-2/M82	1.29628	0.977
12-2/M82	1.5249	0.61
12-4/M82	0.57705	0.319
1-3/M82	N/A	N/A
2-1-1/M82	1.26642	0.764
2-1/M82	0.36313
2-6/M82	0.76366	0.501
3-2/M82	N/A	N/A
4-1-1/M82	0.28923
4-1/M82	0.65836
4-3-2/M82	0.8209	0.698
4-3/M82	0.67444	0.509
5-3/M82	0.70415	0.642
6-2/M82	N/A	N/A
6-3/M82	2.88343	1
7-1/M82	0.86372
7-2/M82	0.52543
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.80023	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.81633	0.418
IL12-4/WTpooled	1.00795	1
IL1-4/WTpooled	0.99721
WT/WTpooled	1.01116	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	1.19614	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.06664	0.921
DC3000/delta hrp 6h	1.11884	1
DC3000/delta hrp 12h	0.99352	1
DC3000/delta hrp 24h	0.81443	0.076

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	2.60865	0.081

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8762	1
Exp 36h	0.73333	0.41
Exp 60h	0.81564	0.257

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95294	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.01356	1
Var 12h NI row2-row1	1.09814	0.649
Var 36h I row2-row1	1.17508	1
Var 36h NI row2-row1	0.76592	0.469
Var 60h I row2-row1	0.77789	0.439
Var 60h NI row2-row1	0.85929	0.458
Time course 0hI-0hNI	0.9335	0.734
Time course 12hI-12hNI	1.08608	0.197
Time course 36hI-36hNI	1.53252	0.009
Time course 60hI-60hNI	4.12189	0.008

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)	8.42558	0.23
transgenic ySAMdc/azygous control (breaker)	1.71997	0.162
transgenic ySAMdc/azygous control (red)	1.06342	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.18769	0.055

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.88508	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	2.27608	0.086
Manapal/WT (break)	1.22126	0.14
Manapal/WT (red)	0.54324	0.188