Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.2.15.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99439	0.891
27DAP/17DAP	1.41852	0.849
39DAP/27DAP	1.22239	0.902
41DAP/39DAP	1.14261	0.96
42DAP/41DAP	0.94306	1
43DAP/42DAP	1.11476	1
47DAP/43DAP	1.06075	0.799
52DAP/47DAP	1.49298	0.401
57DAP/52DAP	1.30152	0.977

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.95316	0.238
17DAP/reference	1.04684	0.112
27DAP/reference	1.18091	0.06
39DAP/reference	1.25468	0.026
41DAP/reference	1.08474	0.287
42DAP/reference	0.86809	0.025
43DAP/reference	1.00748	0.982
47DAP/reference	0.86432	0.018
52DAP/reference	0.93021	0.31
57DAP/reference	0.97416	0.415

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94284	0.542
27DAP/17DAP	0.96431	0.878
39DAP/27DAP	1.35248	0.353
41DAP/39DAP	1.36818	0.612
42DAP/41DAP	0.83572	0.236
43DAP/42DAP	0.85914	0.28
47DAP/43DAP	1.14621	0.618
52DAP/47DAP	0.98755	0.919
57DAP/52DAP	1.03156	1
57DAP/7DAP	0.99003	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77252	0.078
17DAP/reference	0.8174	0.035
27DAP/reference	1.12793	0.107
39DAP/reference	0.72762	0.013
41DAP/reference	0.774	0.021
42DAP/reference	0.87109	0.048
43DAP/reference	0.74389	0.015
47DAP/reference	0.83	0.05
52DAP/reference	0.76607	0.03
57DAP/reference	0.80423	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.28656	0.048
17DAP/reference	1.02707	0.674
27DAP/reference	0.99853	0.735
39DAP/reference	0.97012	0.428
41DAP/reference	1.13732	0.831
42DAP/reference	0.97168	0.321
43DAP/reference	1.55288	0.081
47DAP/reference	1.03578	0.731
52DAP/reference	1.017	1
57DAP/reference	1.20708	0.127

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.92698	0.112
17DAP/reference	0.99388	0.792
27DAP/reference	0.99241	0.691
39DAP/reference	0.96176	0.504
41DAP/reference	0.97851	0.56
42DAP/reference	0.99296	0.816
43DAP/reference	0.7785	0.019
47DAP/reference	1.00675	0.708
52DAP/reference	0.92233	0.538
57DAP/reference	0.65763	0.017

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.22078	0.43
26DAP/20DAP	1.55856	0.196
34DAP/26DAP	0.901	0.619
51DAP/34DAP	0.72559	0.086
52DAP/51DAP	1.20857	0.404
53DAP/52DAP	1.15484	0.121
55DAP/53DAP	0.88302	0.577
57DAP/55DAP	1.10848	0.975
62DAP/57DAP	0.77775	0.28
68DAP/62DAP	1.09246	0.95
68DAP/14DAP	0.82259	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.53885	0.031

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.21963	0.068
Mature Green Tomato/Ripe Tomato	1.43708	0.331
Immature Eggplant/Mature Eggplant	2.38293
Ripe Pepper/Ripe Tomato	4.25742	0.258
Mature Eggplant/Ripe Tomato	1.33211	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.10551	0.505
1-1-2/M82	1.00787	1
12-2/M82	N/A	N/A
12-4/M82	1.17406
1-3/M82	0.68856
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.86607	1
3-2/M82	N/A	N/A
4-1-1/M82	1.38977	1
4-1/M82	1.28262
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.91134	1
6-2/M82	0.97433
6-3/M82	1.17783	1
7-1/M82	N/A	N/A
7-2/M82	1.02603	1
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.49126	0.277
IL2-6/WTpooled	1.31091	0.584
IL7-5/WTpooled	1.74868	0.792
IL7-3/WTpooled	1.15107	1
IL12-4/WTpooled	1.31869	0.532
IL1-4/WTpooled	1.19616	1
WT/WTpooled	0.90803	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	1.19552	0.699

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.01968	1
DC3000/delta hrp 6h	1.03818	0.95
DC3000/delta hrp 12h	N/A	N/A
DC3000/delta hrp 24h	1.11076	0.397

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.78898	0.196
DC3000 delta B/DC3000 delta AB	1.31272	0.217

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.16546	0.254
Exp 36h	1.37735	0.489
Exp 60h	1.41325	0.237

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

hybridization	ratio	FDR (corrected p value)
self-self	1.04699	1
Var 0h	0.49337	1
Var 12h I row2-row1	1.05744	0.406
Var 12h NI row2-row1	0.85737	0.713
Var 36h I row2-row1	0.87632	1
Var 36h NI row2-row1	0.99397	1
Var 60h I row2-row1	0.74546	0.285
Var 60h NI row2-row1	0.91326	0.866
Time course 0hI-0hNI	1.05016	0.833
Time course 12hI-12hNI	1.10547	0.293
Time course 36hI-36hNI	1.5384	0.005
Time course 60hI-60hNI	2.32468	0.008

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)	1.09195	0.256
transgenic ySAMdc/azygous control (breaker)	0.98772	1
transgenic ySAMdc/azygous control (red)	0.9568	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.07204	0.077

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.87297	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.83356	1
Manapal/WT (break)	0.94748	1
Manapal/WT (red)	0.79811	0.242