Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.1.13.6

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.04565	0.977
27DAP/17DAP	1.10802	0.845
39DAP/27DAP	1.00433	1
41DAP/39DAP	0.96153	0.83
42DAP/41DAP	1.06158	0.978
43DAP/42DAP	0.91152	0.705
47DAP/43DAP	0.96153	0.851
52DAP/47DAP	0.99888	0.933
57DAP/52DAP	1.07638	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.0375	0.872
17DAP/reference	0.96514	0.63
27DAP/reference	0.98091	0.654
39DAP/reference	1.06023	0.603
41DAP/reference	0.98121	0.667
42DAP/reference	1.04887	0.414
43DAP/reference	1.02938	0.518
47DAP/reference	1.00341	1
52DAP/reference	0.93813	0.292
57DAP/reference	1.06239	0.091

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97562	0.732
27DAP/17DAP	0.95204	0.684
39DAP/27DAP	1.00633	0.832
41DAP/39DAP	0.92415	0.997
42DAP/41DAP	0.9853	0.809
43DAP/42DAP	1.0413
47DAP/43DAP	1.04712	0.798
52DAP/47DAP	0.91196	0.671
57DAP/52DAP	0.97375	0.678
57DAP/7DAP	1.01007	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95167	0.082
17DAP/reference	0.91306	0.012
27DAP/reference	0.91182	0.01
39DAP/reference	0.98434	0.264
41DAP/reference	0.9656	0.153
42DAP/reference	0.97431	0.262
43DAP/reference	1.04547	0.273
47DAP/reference	0.9501	0.222
52DAP/reference	0.9607	0.163
57DAP/reference	0.94888	0.207

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26667	0.063
17DAP/reference	1.01752	0.92
27DAP/reference	0.89274	0.167
39DAP/reference	0.9465	0.25
41DAP/reference	0.96823	0.403
42DAP/reference	1.06973	0.596
43DAP/reference	0.93734	0.25
47DAP/reference	1.18998	0.012
52DAP/reference	0.92635	0.187
57DAP/reference	1.0344	0.64

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94256	0.033
17DAP/reference	0.97096	0.477
27DAP/reference	0.9982	0.843
39DAP/reference	0.94992	0.037
41DAP/reference	0.9636	0.185
42DAP/reference	0.88534	0.134
43DAP/reference	0.8933	0.064
47DAP/reference	1.01673	0.994
52DAP/reference	1.12307	0.301
57DAP/reference	0.90607	0.134

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.96335	1
26DAP/20DAP	1.15582	0.615
34DAP/26DAP	0.96577	0.944
51DAP/34DAP	1.03025	0.869
52DAP/51DAP	1.09632	0.742
53DAP/52DAP	1.08791	0.678
55DAP/53DAP	0.93247	0.735
57DAP/55DAP	1.51222	0.779
62DAP/57DAP	1.15874
68DAP/62DAP	0.83964	0.505
68DAP/14DAP	1.42976

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.98842	0.665

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.00114	0.863
Mature Green Tomato/Ripe Tomato	1.01438	1
Immature Eggplant/Mature Eggplant	1.3289	0.222
Ripe Pepper/Ripe Tomato	0.81409	1
Mature Eggplant/Ripe Tomato	0.5184	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.94948	0.736
1-1-2/M82	0.85395	0.958
12-2/M82	0.9537	0.955
12-4/M82	1.01936	1
1-3/M82	0.89945	0.501
2-1-1/M82	0.85991	0.465
2-1/M82	1.4727	1
2-6/M82	0.9946	1
3-2/M82	1.02432	0.549
4-1-1/M82	0.9897	1
4-1/M82	0.69381	1
4-3-2/M82	0.90881	0.698
4-3/M82	0.96754	0.72
5-3/M82	0.94437	1
6-2/M82	0.94568	1
6-3/M82	0.98094	0.982
7-1/M82	0.99332	1
7-2/M82	0.96942	0.881
9-3-2/M82	0.92838	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.97758	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	N/A	N/A
IL1-4/WTpooled	N/A	N/A
WT/WTpooled	N/A	N/A

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	1.9677

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.96401	1
DC3000/delta hrp 6h	1.51546	1
DC3000/delta hrp 12h	1.05361	1
DC3000/delta hrp 24h	1.04702	0.62

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.39295	0.042
DC3000 delta B/DC3000 delta AB	1.12021	0.449

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	0.98964	1
Var 0h	1.04567	1
Var 12h I row2-row1	1.29211	0.204
Var 12h NI row2-row1	1.0342	1
Var 36h I row2-row1	0.95628	1
Var 36h NI row2-row1	0.85965	0.61
Var 60h I row2-row1	1.21862	1
Var 60h NI row2-row1	1.11665	1
Time course 0hI-0hNI	1.01776	1
Time course 12hI-12hNI	1.08281	0.593
Time course 36hI-36hNI	1.09178	0.08
Time course 60hI-60hNI	2.92064	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)	1.49437	0.318
transgenic ySAMdc/azygous control (breaker)	1.48269	1
transgenic ySAMdc/azygous control (red)	1.48507	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98697	0.444

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.58316	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.59535	1
Manapal/WT (break)	0.79883	1
Manapal/WT (red)	0.61207	0.181