Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.3.4.18

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.02663	0.938
27DAP/17DAP	1.18281	1
39DAP/27DAP	0.91021	0.507
41DAP/39DAP	1.45717	0.788
42DAP/41DAP	1.64689	0.184
43DAP/42DAP	1.14106	0.993
47DAP/43DAP	0.98182	0.879
52DAP/47DAP	1.13289	0.794
57DAP/52DAP	1.1138	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.83494	0.205
17DAP/reference	0.82815	0.393
27DAP/reference	1.40359	0.156
39DAP/reference	0.89266	0.324
41DAP/reference	0.82552	0.065
42DAP/reference	0.90998	0.111
43DAP/reference	1.28687
47DAP/reference	0.70267	0.279
52DAP/reference	0.73739	0.135
57DAP/reference	N/A	N/A

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99256	0.826
27DAP/17DAP	1.07905	0.78
39DAP/27DAP	1.12032	0.532
41DAP/39DAP	0.97788	0.98
42DAP/41DAP	0.90351	0.473
43DAP/42DAP	0.961	0.751
47DAP/43DAP	1.05633	0.88
52DAP/47DAP	1.08686	0.71
57DAP/52DAP	0.83286	0.451
57DAP/7DAP	1.0591	0.365

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.8186	0.024
17DAP/reference	1.59383	0.02
27DAP/reference	1.29179	0.009
39DAP/reference	1.1458	0.186
41DAP/reference	0.98692	0.589
42DAP/reference	1.31717	0.174
43DAP/reference	0.97509	0.459
47DAP/reference	0.94985	0.383
52DAP/reference	1.25462	0.098
57DAP/reference	1.46864	0.004

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.24996	0.538
17DAP/reference	0.78063	0.07
27DAP/reference	1.05161	0.822
39DAP/reference	0.82978	0.144
41DAP/reference	1.03691	0.831
42DAP/reference	0.8277	0.073
43DAP/reference	0.67464	0.005
47DAP/reference	0.89744	0.116
52DAP/reference	0.90757	0.327
57DAP/reference	0.85576	0.04

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	2.84678	0.021
17DAP/reference	2.05769	0.354
27DAP/reference	1.8208	0.013
39DAP/reference	1.35137	0.018
41DAP/reference	1.14629	0.112
42DAP/reference	1.15249	0.775
43DAP/reference	1.23494	0.308
47DAP/reference	1.04878	0.655
52DAP/reference	0.97824	0.704
57DAP/reference	1.41373	0.113

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03209	0.966
26DAP/20DAP	0.98083	1
34DAP/26DAP	0.93144	0.795
51DAP/34DAP	0.91984	0.631
52DAP/51DAP	1.04697	0.888
53DAP/52DAP	1.04522	0.91
55DAP/53DAP	0.86502	0.577
57DAP/55DAP	1.17817	0.947
62DAP/57DAP	0.84502	0.871
68DAP/62DAP	0.86147	0.378
68DAP/14DAP	1.17793	0.346

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.82902	0.034

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	3.21667	0.089
Mature Green Tomato/Ripe Tomato	1.7361	0.209
Immature Eggplant/Mature Eggplant	0.25642
Ripe Pepper/Ripe Tomato	0.99185
Mature Eggplant/Ripe Tomato	1.72333	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	0.74031	0.319
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	1.23805
4-3/M82	0.8534
5-3/M82	1.04873	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.88839
7-2/M82	N/A	N/A
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.31469	0.277
IL2-6/WTpooled	1.41939	0.531
IL7-5/WTpooled	1.2926	0.792
IL7-3/WTpooled	0.66344
IL12-4/WTpooled	1.50752	0.673
IL1-4/WTpooled	1.04872	1
WT/WTpooled	1.12971	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	1.07705	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	N/A	N/A
DC3000/delta hrp 6h	0.87133	0.95
DC3000/delta hrp 12h	0.95696	1
DC3000/delta hrp 24h	0.69015	0.33

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	0.72718

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92673	1
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	1.05448	1
Var 0h	0.83554	0.202
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	N/A	N/A
Var 36h I row2-row1	1.18848	0.283
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	N/A	N/A
Var 60h NI row2-row1	N/A	N/A
Time course 0hI-0hNI	1.0197	0.833
Time course 12hI-12hNI	0.91499	0.442
Time course 36hI-36hNI	1.18811	0.05
Time course 60hI-60hNI	1.41016	0.069

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)	1.20556	0.254
transgenic ySAMdc/azygous control (breaker)	1.22334	0.248
transgenic ySAMdc/azygous control (red)	0.96768	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.10758	0.083

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.30044	0.233

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.97582	1
Manapal/WT (break)	1.18537	0.381
Manapal/WT (red)	1.36932	0.142