Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.1.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.31821	0.485
27DAP/17DAP	1.0854	0.92
39DAP/27DAP	0.7481	0.522
41DAP/39DAP	1.16064	0.904
42DAP/41DAP	1.11196	0.92
43DAP/42DAP	0.85289	0.744
47DAP/43DAP	0.92805	0.667
52DAP/47DAP	1.03419	0.965
57DAP/52DAP	1.34375	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.11853	0.29
17DAP/reference	1.0246	0.457
27DAP/reference	0.9895	0.725
39DAP/reference	1.01366	0.857
41DAP/reference	1.01077	1
42DAP/reference	0.95676	0.242
43DAP/reference	0.99298	0.84
47DAP/reference	1.01295	1
52DAP/reference	1.06627	0.388
57DAP/reference	0.97881	0.526

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09548	0.581
27DAP/17DAP	1.42818	0.227
39DAP/27DAP	0.8539	0.361
41DAP/39DAP	0.99119	1
42DAP/41DAP	1.02357	0.924
43DAP/42DAP	1.30089	0.134
47DAP/43DAP	0.94208	0.805
52DAP/47DAP	0.75282	0.048
57DAP/52DAP	1.32372	0.79
57DAP/7DAP	0.95914	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.65957	0.051
17DAP/reference	2.55074	0.006
27DAP/reference	2.38185	0.006
39DAP/reference	2.77658	0.005
41DAP/reference	3.09996	0.008
42DAP/reference	2.94255	0.006
43DAP/reference	3.18294	0.006
47DAP/reference	1.63389	0.109
52DAP/reference	2.53983	0.007
57DAP/reference	2.16531	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.12725	0.308
17DAP/reference	1.17784	0.264
27DAP/reference	1.02888	0.988
39DAP/reference	0.98685	0.603
41DAP/reference	1.02546	0.944
42DAP/reference	1.08916	0.267
43DAP/reference	1.03539	0.681
47DAP/reference	1.02009	0.751
52DAP/reference	1.01715	1
57DAP/reference	1.04856	0.887

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.91938	0.033
17DAP/reference	1.3469	0.337
27DAP/reference	2.15775	0.017
39DAP/reference	1.75641	0.007
41DAP/reference	1.72734	0.012
42DAP/reference	1.95865	0.021
43DAP/reference	1.75334	0.094
47DAP/reference	1.08903	0.501
52DAP/reference	2.07402	0.074
57DAP/reference	1.41678	0.47

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.9812	1
26DAP/20DAP	1.46589	0.818
34DAP/26DAP	0.51413
51DAP/34DAP	1.00949	0.901
52DAP/51DAP	1.08939	1
53DAP/52DAP	1.29894	0.768
55DAP/53DAP	0.8762	0.53
57DAP/55DAP	1.29371	0.543
62DAP/57DAP	1.46889	0.393
68DAP/62DAP	0.83832	0.543
68DAP/14DAP	0.95281	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.69216	0.039

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.78361	0.351
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	0.96811	0.912
Ripe Pepper/Ripe Tomato	1.1712	1
Mature Eggplant/Ripe Tomato	1.55149	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.82499	0.319
1-3/M82	N/A	N/A
2-1-1/M82	0.61827
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	1.30936
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	0.98172
4-3/M82	N/A	N/A
5-3/M82	1.00589	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	N/A	N/A
9-3-2/M82	1.13402

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.92576	1
IL2-6/WTpooled	1.10356	0.395
IL7-5/WTpooled	1.23985	0.587
IL7-3/WTpooled	0.88306	0.418
IL12-4/WTpooled	0.81941	1
IL1-4/WTpooled	0.92205	0.562
WT/WTpooled	0.88356	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	0.76503	0.226

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.12935
DC3000/delta hrp 6h	1.20027	1
DC3000/delta hrp 12h	1.05524	1
DC3000/delta hrp 24h	1.15023	0.397

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	1.621	0.146

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.03878	0.227
Exp 36h	0.96999	0.943
Exp 60h	0.92144	0.664

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9469
Var 0h	0.80113
Var 12h I row2-row1	0.94087
Var 12h NI row2-row1	1.43452	0.34
Var 36h I row2-row1	1.23285	0.339
Var 36h NI row2-row1	0.89978	0.743
Var 60h I row2-row1	0.83025	0.285
Var 60h NI row2-row1	0.90172	0.292
Time course 0hI-0hNI	0.99231	0.985
Time course 12hI-12hNI	1.02992	0.849
Time course 36hI-36hNI	1.15538	0.128
Time course 60hI-60hNI	1.22556	0.216

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)	1.04175	0.699
transgenic ySAMdc/azygous control (breaker)	1.17924	0.248
transgenic ySAMdc/azygous control (red)	0.8988	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99205	0.757

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.03743	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.15317	0.307
Manapal/WT (break)	0.89897	1
Manapal/WT (red)	0.90685	0.607