Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.18.4

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.13029	0.709
27DAP/17DAP	1.01444	0.947
39DAP/27DAP	1.38382	0.718
41DAP/39DAP	1.132	0.797
42DAP/41DAP	1.08569	1
43DAP/42DAP	0.97871	0.91
47DAP/43DAP	1.21174	0.876
52DAP/47DAP	1.15483	0.906
57DAP/52DAP	0.94734	0.927

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.86463	0.077
17DAP/reference	0.79745	0.043
27DAP/reference	0.93921	0.525
39DAP/reference	0.77267	0.053
41DAP/reference	0.754	0.039
42DAP/reference	0.9899	0.469
43DAP/reference	0.84159	0.02
47DAP/reference	0.95885	0.279
52DAP/reference	0.99846	0.73
57DAP/reference	0.98482	0.503

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.91584	0.258
27DAP/17DAP	0.98066	0.919
39DAP/27DAP	0.90749	0.556
41DAP/39DAP	0.90973	0.747
42DAP/41DAP	0.99649	0.797
43DAP/42DAP	1.23066	0.134
47DAP/43DAP	1.26024	0.14
52DAP/47DAP	1.1804	0.624
57DAP/52DAP	1.27881	0.489
57DAP/7DAP	1.08499	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83978	0.073
17DAP/reference	0.85916	0.028
27DAP/reference	0.77255	0.011
39DAP/reference	0.91681	0.034
41DAP/reference	0.98491	0.565
42DAP/reference	0.98834	0.582
43DAP/reference	0.85621	0.015
47DAP/reference	0.88158	0.168
52DAP/reference	0.93532	0.232
57DAP/reference	1.01929	0.831

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83392	0.093
17DAP/reference	0.83093	0.058
27DAP/reference	0.81921	0.084
39DAP/reference	1.03719	0.912
41DAP/reference	0.97472	0.403
42DAP/reference	1.04742	0.81
43DAP/reference	0.80007	0.04
47DAP/reference	0.85198	0.025
52DAP/reference	1.08391	0.074
57DAP/reference	0.87847	0.107

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.93452	0.362
17DAP/reference	0.94424	0.407
27DAP/reference	0.82212	0.037
39DAP/reference	0.84063	0.024
41DAP/reference	0.90684	0.132
42DAP/reference	1.014	1
43DAP/reference	0.97145	0.59
47DAP/reference	0.75601	0.057
52DAP/reference	0.83066	0.186
57DAP/reference	1.10037	0.549

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.23094	0.966
26DAP/20DAP	1.15148	0.558
34DAP/26DAP	1.10987	1
51DAP/34DAP	1.02057	0.949
52DAP/51DAP	1.02249	1
53DAP/52DAP	0.8553	0.535
55DAP/53DAP	1.20813	0.599
57DAP/55DAP	0.94726	0.78
62DAP/57DAP	0.89492	0.466
68DAP/62DAP	1.65432	0.139
68DAP/14DAP	1.59131	0.487

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.881	0.341

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.76195	0.312
Mature Green Tomato/Ripe Tomato	0.90001
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.49362	1
Mature Eggplant/Ripe Tomato	0.65437	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91441	0.69
1-1-2/M82	0.93555	0.958
12-2/M82	0.99281	1
12-4/M82	1.05363
1-3/M82	0.96139	1
2-1-1/M82	N/A	N/A
2-1/M82	1.35465	1
2-6/M82	1.10589	0.594
3-2/M82	0.74229
4-1-1/M82	1.03013	1
4-1/M82	1.04934
4-3-2/M82	1.04217
4-3/M82	0.88508	0.72
5-3/M82	0.97568	1
6-2/M82	1.1285	1
6-3/M82	0.94571	1
7-1/M82	0.93238
7-2/M82	0.97235	0.881
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	0.8698	0.562
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	1.69513	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0649	0.921
DC3000/delta hrp 6h	1.04886
DC3000/delta hrp 12h	0.96589	1
DC3000/delta hrp 24h	1.20637	0.232

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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.7633	1
Exp 36h	1.20598	1
Exp 60h	1.49931	0.399

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

hybridization	ratio	FDR (corrected p value)
self-self	1.14881	1
Var 0h	0.65152	1
Var 12h I row2-row1	1.34644	0.222
Var 12h NI row2-row1	1.38817	1
Var 36h I row2-row1	0.91003	0.805
Var 36h NI row2-row1	0.93636	0.791
Var 60h I row2-row1	0.8546	0.306
Var 60h NI row2-row1	1.17118	1
Time course 0hI-0hNI	0.97703	0.662
Time course 12hI-12hNI	1.45746	0.006
Time course 36hI-36hNI	2.64851	0.004
Time course 60hI-60hNI	3.01019	0.012

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)	0.89134	0.391
transgenic ySAMdc/azygous control (breaker)	0.79089	0.173
transgenic ySAMdc/azygous control (red)	1.07379	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99795	0.886

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.60665	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.26037	0.105
Manapal/WT (break)	1.09958	1
Manapal/WT (red)	1.04769	1