Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.4.17.12

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	4.86277	0.025
27DAP/17DAP	1.24216	0.742
39DAP/27DAP	1.05193	1
41DAP/39DAP	0.86648	0.483
42DAP/41DAP	1.53527	0.049
43DAP/42DAP	0.68789	0.495
47DAP/43DAP	1.02385	0.972
52DAP/47DAP	0.72982	0.287
57DAP/52DAP	1.22282	0.964

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.07995	1
17DAP/reference	0.80335	0.035
27DAP/reference	0.97005	0.642
39DAP/reference	0.80546	0.023
41DAP/reference	0.80564	0.021
42DAP/reference	1.09942	0.782
43DAP/reference	0.91279	0.273
47DAP/reference	1.28844	0.318
52DAP/reference	1.71624	0.026
57DAP/reference	1.86353	0.013

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	2.02665	0.036
27DAP/17DAP	1.19323	0.523
39DAP/27DAP	1.17583	0.262
41DAP/39DAP	0.83976	0.446
42DAP/41DAP	1.12652	0.334
43DAP/42DAP	1.53606	0.017
47DAP/43DAP	0.84461	0.195
52DAP/47DAP	1.2619	0.306
57DAP/52DAP	0.71628	0.095
57DAP/7DAP	1.119	0.204

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77977	0.091
17DAP/reference	0.77837	0.072
27DAP/reference	0.87202	0.076
39DAP/reference	1.10353	0.538
41DAP/reference	0.84616	0.153
42DAP/reference	0.90068	0.235
43DAP/reference	0.88913	0.202
47DAP/reference	1.04035	1
52DAP/reference	0.77592	0.013
57DAP/reference	0.61478	0.006

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89252	0.329
17DAP/reference	0.97507	0.523
27DAP/reference	0.93317	0.317
39DAP/reference	1.31521	0.085
41DAP/reference	1.1783	0.043
42DAP/reference	1.31542	0.049
43DAP/reference	1.00975	0.774
47DAP/reference	1.08653	0.795
52DAP/reference	1.20425	0.368
57DAP/reference	0.75461	0.026

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.67536	0.05
17DAP/reference	0.86159	0.205
27DAP/reference	0.85747	0.089
39DAP/reference	0.96253	0.43
41DAP/reference	1.19072	0.104
42DAP/reference	1.37674	0.026
43DAP/reference	1.29988	0.168
47DAP/reference	1.10014	1
52DAP/reference	0.84679	0.142
57DAP/reference	1.49577	0.068

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.74538	1
26DAP/20DAP	0.48951
34DAP/26DAP	1.36503	0.542
51DAP/34DAP	1.05977	0.993
52DAP/51DAP	1.00143	1
53DAP/52DAP	0.84975	0.587
55DAP/53DAP	1.05484	1
57DAP/55DAP	1.04019	0.955
62DAP/57DAP	1.11912	1
68DAP/62DAP	1.60206	0.557
68DAP/14DAP	0.74819	0.078

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	7.47528	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.47707	0.022
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.21
Mature Eggplant/Ripe Tomato	0.15089	0.234

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.31008	0.877
1-1-2/M82	1.48028	1
12-2/M82	0.5659	0.639
12-4/M82	1.39125	1
1-3/M82	0.57319	0.378
2-1-1/M82	1.32077	0.457
2-1/M82	0.7209	0.519
2-6/M82	0.47137	1
3-2/M82	1.68504	0.967
4-1-1/M82	1.83294	0.968
4-1/M82	1.89614	0.512
4-3-2/M82	0.92662	1
4-3/M82	1.27171	1
5-3/M82	0.72111	1
6-2/M82	0.47193	0.481
6-3/M82	15.3948
7-1/M82	1.3258	0.539
7-2/M82	0.67903	0.796
9-3-2/M82	0.70287	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.83074
IL2-6/WTpooled	0.83907	1
IL7-5/WTpooled	0.81708	1
IL7-3/WTpooled	1.13984	1
IL12-4/WTpooled	1.01789	0.891
IL1-4/WTpooled	0.94255	0.834
WT/WTpooled	1.00772	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	0.89825

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.0072	1
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	0.9527	0.682

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	N/A	N/A
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	1.01618	1
Var 0h	1.00435	1
Var 12h I row2-row1	1.71591	0.506
Var 12h NI row2-row1	1.65365	1
Var 36h I row2-row1	0.94924	1
Var 36h NI row2-row1	0.88999	0.791
Var 60h I row2-row1	1.32748	1
Var 60h NI row2-row1	0.51321	1
Time course 0hI-0hNI	1.13169	0.852
Time course 12hI-12hNI	1.06911	0.724
Time course 36hI-36hNI	0.71845	0.084
Time course 60hI-60hNI	0.32099	0.009

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)	N/A	N/A
transgenic ySAMdc/azygous control (breaker)	N/A	N/A
transgenic ySAMdc/azygous control (red)	0.9575	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	N/A	N/A

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.75924	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	N/A	N/A
Manapal/WT (break)	1.01475	1
Manapal/WT (red)	1.95992	0.222