Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.18.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.93616	0.671
27DAP/17DAP	1.14495	0.859
39DAP/27DAP	0.87248	0.583
41DAP/39DAP	1.02173	0.925
42DAP/41DAP	1.1776	0.899
43DAP/42DAP	0.84681	0.787
47DAP/43DAP	0.89035	0.599
52DAP/47DAP	1.49793	0.651
57DAP/52DAP	1.19013	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92631	0.231
17DAP/reference	0.9884	0.63
27DAP/reference	1.00299	1
39DAP/reference	0.98821	0.762
41DAP/reference	0.99818	1
42DAP/reference	0.98138	0.287
43DAP/reference	1.02886	0.495
47DAP/reference	0.94237	0.013
52DAP/reference	1.03689	0.8
57DAP/reference	0.90216	0.035

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.97468	0.679
27DAP/17DAP	1.00679	1
39DAP/27DAP	1.15538	0.46
41DAP/39DAP	0.9345	0.793
42DAP/41DAP	1.06036	0.8
43DAP/42DAP	1.10471	0.351
47DAP/43DAP	1.01379	0.969
52DAP/47DAP	1.01047	0.991
57DAP/52DAP	1.079	0.598
57DAP/7DAP	1.27338	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.90686	0.08
17DAP/reference	0.90058	0.013
27DAP/reference	0.8145	0.01
39DAP/reference	0.96751	0.17
41DAP/reference	0.95022	0.116
42DAP/reference	0.96062	0.048
43DAP/reference	0.86318	0.011
47DAP/reference	0.82653	0.044
52DAP/reference	0.90316	0.057
57DAP/reference	0.89361	0.02

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97644	0.655
17DAP/reference	0.88917	0.015
27DAP/reference	0.80584	0.051
39DAP/reference	0.9038	0.129
41DAP/reference	0.81499	0.045
42DAP/reference	0.88444	0.016
43DAP/reference	0.93327	0.229
47DAP/reference	0.91167	0.043
52DAP/reference	0.92484	0.051
57DAP/reference	0.99331	0.754

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95448	0.158
17DAP/reference	0.95657	0.55
27DAP/reference	0.92811	0.089
39DAP/reference	0.98372	0.43
41DAP/reference	0.95906	0.371
42DAP/reference	0.84582	0.108
43DAP/reference	0.88721	0.171
47DAP/reference	0.99896	0.667
52DAP/reference	0.82418	0.155
57DAP/reference	0.63867	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.06171	0.966
26DAP/20DAP	0.96456	1
34DAP/26DAP	0.9918	1
51DAP/34DAP	0.93957	0.504
52DAP/51DAP	1.08857	0.413
53DAP/52DAP	1.02436	0.935
55DAP/53DAP	1.06593	0.869
57DAP/55DAP	1.08997	0.915
62DAP/57DAP	1.12582	0.393
68DAP/62DAP	0.86261	0.406
68DAP/14DAP	0.81072	0.121

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96765	0.547

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.05748	0.058
Mature Green Tomato/Ripe Tomato	1.40934
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.87721	1
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.02597	0.591
1-1-2/M82	1.01593	1
12-2/M82	1.08631	1
12-4/M82	1.08303	1
1-3/M82	0.90547	0.501
2-1-1/M82	1.23111	0.764
2-1/M82	1.41852
2-6/M82	0.92871	1
3-2/M82	1.01397
4-1-1/M82	0.80014	1
4-1/M82	1.03784
4-3-2/M82	0.91738
4-3/M82	0.96569	1
5-3/M82	1.1256	0.455
6-2/M82	0.89046	1
6-3/M82	0.92195	0.559
7-1/M82	0.90276	1
7-2/M82	0.89442	0.469
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	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	0.94593

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	1.07823	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97745	1
DC3000/delta hrp 6h	0.83837	0.95
DC3000/delta hrp 12h	1.11251	1
DC3000/delta hrp 24h	1.04909	0.502

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.22015	0.057
DC3000 delta B/DC3000 delta AB	1.09608	0.457

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8737	1
Exp 36h	0.54894	0.749
Exp 60h	0.6861	0.266

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

hybridization	ratio	FDR (corrected p value)
self-self	0.95665	1
Var 0h	0.94871	0.782
Var 12h I row2-row1	1.10391	0.272
Var 12h NI row2-row1	0.96689	0.82
Var 36h I row2-row1	1.06286	1
Var 36h NI row2-row1	0.9097	0.549
Var 60h I row2-row1	1.06174	1
Var 60h NI row2-row1	1.1447	0.904
Time course 0hI-0hNI	1.11716	0.603
Time course 12hI-12hNI	1.06568	0.709
Time course 36hI-36hNI	0.9853	0.611
Time course 60hI-60hNI	1.3041	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)	1.47889	0.287
transgenic ySAMdc/azygous control (breaker)	0.72914	0.251
transgenic ySAMdc/azygous control (red)	1.24919	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97826	0.343

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.69572	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.62415	1
Manapal/WT (break)	1.03083	1
Manapal/WT (red)	0.98284	1