Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.4.8.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91549	0.61
27DAP/17DAP	1.05654	0.945
39DAP/27DAP	1.12942	0.949
41DAP/39DAP	0.58107	0.068
42DAP/41DAP	1.08931	0.941
43DAP/42DAP	1.5707	0.962
47DAP/43DAP	0.47952	0.049
52DAP/47DAP	1.43516	0.351
57DAP/52DAP	0.66167	0.546

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9834	0.63
17DAP/reference	1.00082	1
27DAP/reference	1.03667	0.966
39DAP/reference	1.2852	0.149
41DAP/reference	1.39851	0.05
42DAP/reference	1.34669	0.033
43DAP/reference	1.18897	0.163
47DAP/reference	1.14402	0.057
52DAP/reference	1.27526	0.633
57DAP/reference	1.39087	0.132

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.11671	0.642
27DAP/17DAP	0.79007	0.206
39DAP/27DAP	1.26878	0.378
41DAP/39DAP	1.30321	0.042
42DAP/41DAP	1.11494	0.687
43DAP/42DAP	0.82221	0.054
47DAP/43DAP	1.09074	0.664
52DAP/47DAP	1.06837	0.779
57DAP/52DAP	1.00756	0.892
57DAP/7DAP	1.00027	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01839	1
17DAP/reference	0.72452	0.035
27DAP/reference	0.91672	0.462
39DAP/reference	0.97455	0.552
41DAP/reference	1.20384	0.171
42DAP/reference	0.95201	0.415
43DAP/reference	0.89008	0.132
47DAP/reference	1.15774	0.468
52DAP/reference	1.12306	0.308
57DAP/reference	1.13499	0.468

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.23027	0.206
17DAP/reference	1.25134	0.229
27DAP/reference	1.16811	0.682
39DAP/reference	1.19897	0.366
41DAP/reference	1.08175	0.925
42DAP/reference	1.36672	0.031
43DAP/reference	0.94566	0.468
47DAP/reference	1.26464	0.482
52DAP/reference	1.39502	0.009
57DAP/reference	1.45578	0.177

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32245	0.167
17DAP/reference	1.23093	0.283
27DAP/reference	1.16139
39DAP/reference	1.27112	0.1
41DAP/reference	1.55703	0.222
42DAP/reference	1.3067	0.327
43DAP/reference	1.663	0.057
47DAP/reference	1.38656	0.093
52DAP/reference	2.2736	0.428
57DAP/reference	1.00537	0.583

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9767	1
26DAP/20DAP	1.27004	0.421
34DAP/26DAP	1.10798	0.819
51DAP/34DAP	0.86128	0.667
52DAP/51DAP	1.30358	0.186
53DAP/52DAP	1.07475	0.845
55DAP/53DAP	1.111	0.898
57DAP/55DAP	0.80478	0.253
62DAP/57DAP	1.20893	0.902
68DAP/62DAP	0.75951	0.464
68DAP/14DAP	0.53313	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98402	0.635

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	N/A	N/A
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	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	1.32133
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	1.47877	0.277
IL2-6/WTpooled	0.81314	1
IL7-5/WTpooled	1.01532
IL7-3/WTpooled	1.04574	1
IL12-4/WTpooled	1.13174	0.673
IL1-4/WTpooled	1.22025	1
WT/WTpooled	0.9663	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	0.86874	0.341

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.35916
DC3000/delta hrp 24h	1.67468	0.71

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.0663	0.094
DC3000 delta B/DC3000 delta AB	1.14893	0.433

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	N/A	N/A
Exp 36h	N/A	N/A
Exp 60h	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99257	1
Var 0h	1.07027	1
Var 12h I row2-row1	0.89351	0.363
Var 12h NI row2-row1	0.92212	0.82
Var 36h I row2-row1	1.1862	1
Var 36h NI row2-row1	1.24234	1
Var 60h I row2-row1	1.05906	1
Var 60h NI row2-row1	0.8688	0.756
Time course 0hI-0hNI	0.99536	1
Time course 12hI-12hNI	0.88818	0.3
Time course 36hI-36hNI	0.89746	0.119
Time course 60hI-60hNI	1.22554	0.069

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	N/A	N/A

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	2.00904	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.53339	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	0.66507	0.333
Manapal/WT (red)	0.93452	0.863