Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.2.3.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.72301	0.137
27DAP/17DAP	1.24665	0.746
39DAP/27DAP	1.05148	0.995
41DAP/39DAP	0.96597	0.802
42DAP/41DAP	0.69556	1
43DAP/42DAP	0.95552	0.9
47DAP/43DAP	0.69696	0.185
52DAP/47DAP	1.06963	0.96
57DAP/52DAP	1.30481	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16542	0.928
17DAP/reference	0.96012	0.664
27DAP/reference	1.05796	0.637
39DAP/reference	0.79291	0.016
41DAP/reference	0.79554	0.154
42DAP/reference	0.71674	0.176
43DAP/reference	0.78499
47DAP/reference	0.78662	0.003
52DAP/reference	0.94161	0.427
57DAP/reference	1.04642

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.15881	0.662
27DAP/17DAP	0.96606	0.878
39DAP/27DAP	1.16321	0.532
41DAP/39DAP	1.09963	0.868
42DAP/41DAP	0.8571	0.309
43DAP/42DAP	1.25017	0.176
47DAP/43DAP	1.24245	0.581
52DAP/47DAP	1.12445	0.785
57DAP/52DAP	1.18375	0.448
57DAP/7DAP	1.24781	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.17778	0.252
17DAP/reference	1.08102	0.754
27DAP/reference	0.9845	0.53
39DAP/reference	1.45357	0.04
41DAP/reference	1.23274	0.363
42DAP/reference	1.16076	0.233
43DAP/reference	1.16495	0.167
47DAP/reference	0.9906	1
52DAP/reference	1.24753	0.033
57DAP/reference	1.27841	0.07

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00206	0.848
17DAP/reference	1.05463	0.961
27DAP/reference	1.02456	0.888
39DAP/reference	1.36622	0.213
41DAP/reference	1.06826	0.601
42DAP/reference	1.1328	0.045
43DAP/reference	0.96112	0.527
47DAP/reference	0.91982	0.232
52DAP/reference	0.89172	0.034
57DAP/reference	0.79068	0.011

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.06786	0.444
17DAP/reference	0.96702	0.624
27DAP/reference	1.02926	1
39DAP/reference	0.86809	0.063
41DAP/reference	0.9141	0.209
42DAP/reference	1.10965	0.49
43DAP/reference	1.13537	0.58
47DAP/reference	1.03204	1
52DAP/reference	1.07057	0.664
57DAP/reference	1.04576	0.954

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.27291	0.966
26DAP/20DAP	1.41641	0.302
34DAP/26DAP	0.97936	0.927
51DAP/34DAP	1.37569	0.224
52DAP/51DAP	1.4196	0.295
53DAP/52DAP	1.06376	0.895
55DAP/53DAP	0.89402	0.363
57DAP/55DAP	0.99396	0.845
62DAP/57DAP	0.93249
68DAP/62DAP	1.09419	0.866
68DAP/14DAP	1.11241	0.826

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.18126	0.212

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.41221
Mature Green Tomato/Ripe Tomato	1.2458	0.881
Immature Eggplant/Mature Eggplant	2.24267
Ripe Pepper/Ripe Tomato	0.33552
Mature Eggplant/Ripe Tomato	0.39086	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.9352
1-1-2/M82	0.93835	1
12-2/M82	N/A	N/A
12-4/M82	0.97103	1
1-3/M82	1.21433	1
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.75976
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	0.91605
5-3/M82	1.52454
6-2/M82	N/A	N/A
6-3/M82	1.04483	1
7-1/M82	N/A	N/A
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	0.91318	1
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.61611	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	1.7919
IL1-4/WTpooled	1.0839
WT/WTpooled	2.04447

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	1.30514	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.09056	0.921
DC3000/delta hrp 6h	1.1036	1
DC3000/delta hrp 12h	1.12355	1
DC3000/delta hrp 24h	1.37382	0.069

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.81346
DC3000 delta B/DC3000 delta AB	0.90534

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.23574	1
Exp 36h	1.64192	0.489
Exp 60h	1.04234	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.92858
Var 0h	N/A	N/A
Var 12h I row2-row1	0.84912
Var 12h NI row2-row1	1.23031
Var 36h I row2-row1	1.02244	1
Var 36h NI row2-row1	N/A	N/A
Var 60h I row2-row1	0.951
Var 60h NI row2-row1	1.58088
Time course 0hI-0hNI	0.98301	0.994
Time course 12hI-12hNI	0.97043	0.956
Time course 36hI-36hNI	1.69652	0.05
Time course 60hI-60hNI	2.37642	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)	0.97576	0.789
transgenic ySAMdc/azygous control (breaker)	0.83204	0.251
transgenic ySAMdc/azygous control (red)	0.96256	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99857	0.858

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.84134	0.308

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.98596	1
Manapal/WT (break)	0.7701	0.333
Manapal/WT (red)	0.87126	0.242