Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.6.2

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.90173	0.532
27DAP/17DAP	1.0177	1
39DAP/27DAP	0.91847	0.631
41DAP/39DAP	1.32389	0.597
42DAP/41DAP	1.44093	0.366
43DAP/42DAP	1.00597	0.937
47DAP/43DAP	0.94861	0.744
52DAP/47DAP	1.25839	0.707
57DAP/52DAP	0.83761	0.759

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.22262	0.068
17DAP/reference	1.18324	0.427
27DAP/reference	0.99417	0.763
39DAP/reference	0.80188	0.076
41DAP/reference	0.84259	0.085
42DAP/reference	0.9924	0.501
43DAP/reference	1.10354	0.518
47DAP/reference	1.0196	1
52DAP/reference	1.37093	0.02
57DAP/reference	1.35289	0.016

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.95105	0.716
27DAP/17DAP	0.95263	0.887
39DAP/27DAP	1.19579	0.718
41DAP/39DAP	0.95122	1
42DAP/41DAP	1.85771	0.354
43DAP/42DAP	1.15559	0.699
47DAP/43DAP	2.87731	0.475
52DAP/47DAP	1.45644
57DAP/52DAP	0.47078	0.155
57DAP/7DAP	0.77816	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.26974	0.095
17DAP/reference	1.24765	0.627
27DAP/reference	0.9219	0.348
39DAP/reference	1.09024	1
41DAP/reference	1.01488	0.778
42DAP/reference	0.91426	0.304
43DAP/reference	0.89832	0.241
47DAP/reference	1.42189	0.067
52DAP/reference	1.06759	0.563
57DAP/reference	1.0822	0.536

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.38632	0.078
17DAP/reference	1.9136	0.009
27DAP/reference	1.22105	0.249
39DAP/reference	1.28892	0.099
41DAP/reference	1.41093	0.005
42DAP/reference	1.24662	0.091
43DAP/reference	0.88505	0.269
47DAP/reference	0.99751	0.66
52DAP/reference	1.37527	0.014
57DAP/reference	0.97535	0.581

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.1928	0.112
17DAP/reference	1.20668	0.488
27DAP/reference	0.90604
39DAP/reference	1.28141	0.275
41DAP/reference	1.21049	0.554
42DAP/reference	0.98954	0.816
43DAP/reference	1.30963	0.07
47DAP/reference	0.92716	0.325
52DAP/reference	1.4659	0.172
57DAP/reference	1.35238	0.013

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.38989	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.07706	1
51DAP/34DAP	2.08526	0.416
52DAP/51DAP	2.61356
53DAP/52DAP	1.02278	0.897
55DAP/53DAP	0.80878	0.544
57DAP/55DAP	1.02003
62DAP/57DAP	1.8744	0.723
68DAP/62DAP	1.40124	0.729
68DAP/14DAP	1.30184	0.265

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.43142	0.496

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	8.15315	0.058
Mature Green Tomato/Ripe Tomato	0.68272	0.182
Immature Eggplant/Mature Eggplant	0.4107	0.057
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	36.1841	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.11983
12-2/M82	N/A	N/A
12-4/M82	1.01098
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	1.49368
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
6-2/M82	N/A	N/A
6-3/M82	0.90891
7-1/M82	N/A	N/A
7-2/M82	0.77937
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.0943	0.365
IL2-6/WTpooled	1.22593	0.46
IL7-5/WTpooled	1.05403	1
IL7-3/WTpooled	1.00741	1
IL12-4/WTpooled	1.0917	0.646
IL1-4/WTpooled	0.94405	0.834
WT/WTpooled	0.95782	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	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.92488	1
DC3000/delta hrp 6h	0.98477	0.95
DC3000/delta hrp 12h	1.63107	1
DC3000/delta hrp 24h	0.88074	0.761

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	1.06528	1
Exp 36h	1.1691	1
Exp 60h	0.62391	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	N/A	N/A
Var 0h	0.97258
Var 12h I row2-row1	N/A	N/A
Var 12h NI row2-row1	0.99383
Var 36h I row2-row1	N/A	N/A
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	N/A	N/A
Time course 12hI-12hNI	N/A	N/A
Time course 36hI-36hNI	N/A	N/A
Time course 60hI-60hNI	N/A	N/A

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)	1.0404	0.798
transgenic ySAMdc/azygous control (breaker)	1.43197	1
transgenic ySAMdc/azygous control (red)	1.04679	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.1934	0.038

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.55412	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.77186	1
Manapal/WT (break)	N/A	N/A
Manapal/WT (red)	1.0282	1