Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.2.16.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82945	0.324
27DAP/17DAP	0.64363	0.148
39DAP/27DAP	1.1936	0.675
41DAP/39DAP	0.97269	0.922
42DAP/41DAP	2.08667	0.071
43DAP/42DAP	1.13664	1
47DAP/43DAP	0.98859	0.895
52DAP/47DAP	0.79009	0.512
57DAP/52DAP	1.06821	1

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14738	0.022
17DAP/reference	1.00514	1
27DAP/reference	1.01305	0.831
39DAP/reference	1.02879	0.722
41DAP/reference	0.94395	0.267
42DAP/reference	1.05444	0.287
43DAP/reference	1.03765	0.617
47DAP/reference	0.99213	0.568
52DAP/reference	0.94985	0.319
57DAP/reference	0.98315	0.503

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.67663	0.099
27DAP/17DAP	1.1432	0.505
39DAP/27DAP	0.83851	0.251
41DAP/39DAP	0.77278	0.037
42DAP/41DAP	1.10337	0.719
43DAP/42DAP	1.22897	0.079
47DAP/43DAP	1.04565	0.951
52DAP/47DAP	1.06273	0.945
57DAP/52DAP	0.88923	0.428
57DAP/7DAP	0.82421	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.20581	0.05
17DAP/reference	1.56766	0.012
27DAP/reference	1.19481	0.03
39DAP/reference	1.69512	0.006
41DAP/reference	1.40988	0.016
42DAP/reference	1.4541	0.011
43DAP/reference	2.01921	0.009
47DAP/reference	1.33868	0.056
52DAP/reference	1.48803	0.007
57DAP/reference	1.51711	0.005

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03448	0.612
17DAP/reference	1.04616	0.236
27DAP/reference	1.13547	0.265
39DAP/reference	1.09049	0.346
41DAP/reference	0.99716	0.649
42DAP/reference	1.03496	0.81
43DAP/reference	0.94125	0.385
47DAP/reference	1.02007	0.816
52DAP/reference	0.97676	0.327
57DAP/reference	0.92818	0.092

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32511	0.034
17DAP/reference	1.07939	0.443
27DAP/reference	1.38815	0.02
39DAP/reference	1.36102	0.018
41DAP/reference	1.48223	0.012
42DAP/reference	1.39965	0.015
43DAP/reference	1.6036	0.018
47DAP/reference	1.02626	0.901
52DAP/reference	1.42962	0.116
57DAP/reference	1.19397	0.285

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.20447	0.966
26DAP/20DAP	0.78981	0.317
34DAP/26DAP	0.85566	0.286
51DAP/34DAP	0.76455	0.22
52DAP/51DAP	1.04766	0.939
53DAP/52DAP	1.13972	0.806
55DAP/53DAP	1.76294	0.19
57DAP/55DAP	0.80426	0.135
62DAP/57DAP	1.06176	0.833
68DAP/62DAP	0.87256	0.609
68DAP/14DAP	1.26767	0.146

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.67494	0.014

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.12157	0.075
Mature Green Tomato/Ripe Tomato	0.82693	0.377
Immature Eggplant/Mature Eggplant	1.15533	0.116
Ripe Pepper/Ripe Tomato	1.05957	1
Mature Eggplant/Ripe Tomato	2.48813

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	1.03635
12-2/M82	N/A	N/A
12-4/M82	N/A	N/A
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	1.32466
3-2/M82	N/A	N/A
4-1-1/M82	1.06057	1
4-1/M82	N/A	N/A
4-3-2/M82	1.19092
4-3/M82	N/A	N/A
5-3/M82	0.93649
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.19549	0.277
IL2-6/WTpooled	0.9651	1
IL7-5/WTpooled	1.16385	0.792
IL7-3/WTpooled	1.0584	1
IL12-4/WTpooled	1.07096	0.785
IL1-4/WTpooled	1.08062	1
WT/WTpooled	1.01416	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	0.97419	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.85685	1
DC3000/delta hrp 6h	0.92339	0.95
DC3000/delta hrp 12h	0.96905	1
DC3000/delta hrp 24h	0.96975	0.808

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.72652	0.074
DC3000 delta B/DC3000 delta AB	0.62069	0.023

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.8931	1
Exp 36h	1.29308	0.693
Exp 60h	1.07374	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99115	1
Var 0h	0.85618	1
Var 12h I row2-row1	0.85341	0.357
Var 12h NI row2-row1	0.96687	0.713
Var 36h I row2-row1	1.03857	0.908
Var 36h NI row2-row1	1.26952	1
Var 60h I row2-row1	1.15992	1
Var 60h NI row2-row1	1.01571	1
Time course 0hI-0hNI	1.10632	0.451
Time course 12hI-12hNI	0.93368	0.551
Time course 36hI-36hNI	0.76133	0.023
Time course 60hI-60hNI	0.24905	0.005

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)	1.01712	0.748
transgenic ySAMdc/azygous control (breaker)	1.79019	0.248
transgenic ySAMdc/azygous control (red)	1.30467	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.09788	0.035

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.6607	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.90483	1
Manapal/WT (break)	0.98435	1
Manapal/WT (red)	1.10584	1