Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.3.17.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.91911	0.558
27DAP/17DAP	1.22466	0.845
39DAP/27DAP	0.91608	0.631
41DAP/39DAP	1.03171	0.964
42DAP/41DAP	1.46437	0.825
43DAP/42DAP	0.84034	0.697
47DAP/43DAP	0.71439	0.208
52DAP/47DAP	1.19187	0.821
57DAP/52DAP	1.26426	0.972

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04505	1
17DAP/reference	0.90429	0.278
27DAP/reference	1.06699	0.612
39DAP/reference	0.96654	0.691
41DAP/reference	1.02039	0.808
42DAP/reference	1.17138	0.13
43DAP/reference	1.00111	0.924
47DAP/reference	1.24263	0.136
52DAP/reference	1.3279	0.453
57DAP/reference	1.28574	0.059

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.17612	0.508
27DAP/17DAP	1.09193	0.909
39DAP/27DAP	1.00189	1
41DAP/39DAP	1.03172	0.921
42DAP/41DAP	0.92051	0.572
43DAP/42DAP	1.04913	0.664
47DAP/43DAP	0.98053	0.902
52DAP/47DAP	1.06014	0.862
57DAP/52DAP	1.33355	0.247
57DAP/7DAP	9.54469

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.7902	0.058
17DAP/reference	1.48034	0.574
27DAP/reference	1.13338	0.664
39DAP/reference	1.47887	0.282
41DAP/reference	2.08525	0.113
42DAP/reference	1.20606	0.686
43DAP/reference	1.12444	0.325
47DAP/reference	1.04455	1
52DAP/reference	1.06015	0.941
57DAP/reference	0.97368	0.458

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.79457	0.374
17DAP/reference	1.07008	0.924
27DAP/reference	0.94493	0.381
39DAP/reference	1.51912	0.366
41DAP/reference	1.20225	0.416
42DAP/reference	1.30438	0.044
43DAP/reference	0.74804	0.016
47DAP/reference	0.89304	0.168
52DAP/reference	0.9659	0.469
57DAP/reference	0.8614	0.156

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95202	0.455
17DAP/reference	0.95831	0.592
27DAP/reference	0.92612	0.243
39DAP/reference	1.23282	0.254
41DAP/reference	1.35977	0.052
42DAP/reference	1.22793	0.356
43DAP/reference	1.313	0.16
47DAP/reference	0.97665	0.574
52DAP/reference	1.51266	0.349
57DAP/reference	1.38142	0.135

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.89423	1
26DAP/20DAP	1.1581	0.896
34DAP/26DAP	1.10984	1
51DAP/34DAP	0.95212	0.737
52DAP/51DAP	1.18943	0.42
53DAP/52DAP	1.05533	0.819
55DAP/53DAP	1.06326	0.964
57DAP/55DAP	0.93658	0.774
62DAP/57DAP	1.14033	0.935
68DAP/62DAP	1.05819	0.81
68DAP/14DAP	0.51717	0.375

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.28863	0.264

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.79903	0.446
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.7926
Mature Eggplant/Ripe Tomato	1.60842	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.09815
12-2/M82	N/A	N/A
12-4/M82	1.02687
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
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	0.90614
7-1/M82	N/A	N/A
7-2/M82	1.20697
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.85253	1
IL2-6/WTpooled	0.98173	1
IL7-5/WTpooled	1.06122	1
IL7-3/WTpooled	1.30441	1
IL12-4/WTpooled	1.04607	0.891
IL1-4/WTpooled	0.70668	0.402
WT/WTpooled	1.1535	0.874

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	1.01155	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.21696	0.644
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	0.86271	1
DC3000/delta hrp 24h	1.32626	0.079

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.68834
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	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	1.06248
Var 0h	1.28617	0.782
Var 12h I row2-row1	0.89202	0.77
Var 12h NI row2-row1	1.24314	0.649
Var 36h I row2-row1	1.40865	0.742
Var 36h NI row2-row1	0.54615	0.61
Var 60h I row2-row1	0.81472	0.582
Var 60h NI row2-row1	1.03885	1
Time course 0hI-0hNI	0.9087	0.595
Time course 12hI-12hNI	1.06571	0.44
Time course 36hI-36hNI	1.12707	0.166
Time course 60hI-60hNI	2.01757	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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.94441	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.95588	0.362

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.47443	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.11614	1
Manapal/WT (break)	0.86178	1
Manapal/WT (red)	1.0209	1