Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.13.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25816	0.545
27DAP/17DAP	1.35719	0.703
39DAP/27DAP	1.52546	0.473
41DAP/39DAP	1.46834	0.612
42DAP/41DAP	1.18288	0.913
43DAP/42DAP	0.97742	0.914
47DAP/43DAP	1.07706	0.702
52DAP/47DAP	1.29587	0.626
57DAP/52DAP	0.9528	0.956

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86846	0.111
17DAP/reference	1.00371	1
27DAP/reference	0.96088	0.484
39DAP/reference	1.04977	0.639
41DAP/reference	0.91581	0.085
42DAP/reference	0.82045	0.002
43DAP/reference	0.88977	0.051
47DAP/reference	0.91235	0.106
52DAP/reference	0.86993	0.105
57DAP/reference	1.0946	0.28

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03262	0.826
27DAP/17DAP	0.90632	0.227
39DAP/27DAP	1.10583	0.553
41DAP/39DAP	1.01839	1
42DAP/41DAP	1.09151	0.753
43DAP/42DAP	1.03611	0.788
47DAP/43DAP	1.03852	0.973
52DAP/47DAP	1.00525	1
57DAP/52DAP	1.07338	0.606
57DAP/7DAP	1.29555	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86094	0.095
17DAP/reference	0.90457	0.167
27DAP/reference	1.19975	0.01
39DAP/reference	0.92269	0.264
41DAP/reference	0.86767	0.103
42DAP/reference	0.94948	0.436
43DAP/reference	0.76581	0.02
47DAP/reference	0.86025	0.128
52DAP/reference	0.83662	0.09
57DAP/reference	0.80545	0.017

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04887	0.66
17DAP/reference	0.93493	0.357
27DAP/reference	0.93345	0.366
39DAP/reference	0.85122	0.085
41DAP/reference	0.89224	0.06
42DAP/reference	1.06437	0.951
43DAP/reference	1.34756	0.105
47DAP/reference	1.22788	0.124
52DAP/reference	1.02643	1
57DAP/reference	1.01154	1

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.75978	0.043
17DAP/reference	0.97413	0.624
27DAP/reference	0.95686	0.465
39DAP/reference	0.84777	0.043
41DAP/reference	0.91117	0.107
42DAP/reference	0.85605	0.028
43DAP/reference	0.82215	0.095
47DAP/reference	1.06308	0.562
52DAP/reference	0.88319	0.334
57DAP/reference	0.9926	0.742

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.02181	1
26DAP/20DAP	1.16936	0.707
34DAP/26DAP	0.96739	0.94
51DAP/34DAP	1.03221	1
52DAP/51DAP	1.13443	0.246
53DAP/52DAP	1.05144	0.845
55DAP/53DAP	1.0173	0.939
57DAP/55DAP	1.03244	0.975
62DAP/57DAP	1.00076	1
68DAP/62DAP	1.08932	0.931
68DAP/14DAP	1.14972	0.936

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.83542	0.239

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.08854
Mature Green Tomato/Ripe Tomato	0.83439	0.487
Immature Eggplant/Mature Eggplant	1.60239	0.063
Ripe Pepper/Ripe Tomato	0.39638	0.224
Mature Eggplant/Ripe Tomato	0.75866	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.15999	0.551
1-1-2/M82	0.97858	1
12-2/M82	1.35696	1
12-4/M82	0.88366	1
1-3/M82	0.89053	0.501
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.93537
3-2/M82	N/A	N/A
4-1-1/M82	1.04333	1
4-1/M82	1.90336	0.853
4-3-2/M82	0.77292	0.698
4-3/M82	0.99875	1
5-3/M82	0.89397	0.49
6-2/M82	0.77813
6-3/M82	0.82505
7-1/M82	N/A	N/A
7-2/M82	1.17102	0.324
9-3-2/M82	0.79328	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.1981	0.456
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.02715	1
IL12-4/WTpooled	1.057	0.646
IL1-4/WTpooled	1.13222	1
WT/WTpooled	0.99713	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	1.08024	0.222

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.00416	1
DC3000/delta hrp 6h	1.02273	0.95
DC3000/delta hrp 12h	1.21332	1
DC3000/delta hrp 24h	1.1085	0.347

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	0.1589

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.06011	1
Exp 36h	N/A	N/A
Exp 60h	1.35501	0.157

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04721	1
Var 0h	1.07813	0.421
Var 12h I row2-row1	1.26052	0.204
Var 12h NI row2-row1	1.01905	1
Var 36h I row2-row1	1.11096	1
Var 36h NI row2-row1	0.99473	1
Var 60h I row2-row1	1.36251	0.562
Var 60h NI row2-row1	0.95507	0.977
Time course 0hI-0hNI	1.18529	0.323
Time course 12hI-12hNI	1.2357	0.009
Time course 36hI-36hNI	1.07688	0.316
Time course 60hI-60hNI	0.8939	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)	0.90213	0.301
transgenic ySAMdc/azygous control (breaker)	0.8459	0.251
transgenic ySAMdc/azygous control (red)	1.18666	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.9865	0.371

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.66985	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90204	1
Manapal/WT (break)	0.7924	0.299
Manapal/WT (red)	1.78749	0.222