Tomato Functional Genomics Database (TFGD)

Expression of 1-1-6.1.18.16

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.94317	0.596
27DAP/17DAP	1.06952	0.926
39DAP/27DAP	0.88456	0.573
41DAP/39DAP	1.21232	0.649
42DAP/41DAP	0.93691	1
43DAP/42DAP	1.20428	0.835
47DAP/43DAP	1.18534	0.809
52DAP/47DAP	1.08382	0.957
57DAP/52DAP	1.02823	0.996

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97735	0.465
17DAP/reference	1.01445	0.717
27DAP/reference	0.99755	0.867
39DAP/reference	0.9964	0.957
41DAP/reference	0.93731	0.341
42DAP/reference	0.97681	0.129
43DAP/reference	0.93613	0.36
47DAP/reference	1.00341	1
52DAP/reference	0.97388	0.36
57DAP/reference	0.92783	0.028

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00535	1
27DAP/17DAP	0.98883	0.821
39DAP/27DAP	1.00075	1
41DAP/39DAP	1.03268	0.817
42DAP/41DAP	1.01468	0.961
43DAP/42DAP	0.99087	0.801
47DAP/43DAP	1.05824	0.798
52DAP/47DAP	0.99639	0.97
57DAP/52DAP	0.9862	0.732
57DAP/7DAP	0.94138	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98765	0.613
17DAP/reference	1.09286	0.022
27DAP/reference	1.12356	0.06
39DAP/reference	1.00483	1
41DAP/reference	1.10796	0.153
42DAP/reference	1.051	0.233
43DAP/reference	1.00306	1
47DAP/reference	0.96284	0.293
52DAP/reference	0.98776	0.435
57DAP/reference	1.04361	0.232

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98405	0.72
17DAP/reference	0.99275	0.728
27DAP/reference	0.97347	0.407
39DAP/reference	0.96043	0.265
41DAP/reference	0.94626	0.087
42DAP/reference	0.89486	0.042
43DAP/reference	0.9423	0.336
47DAP/reference	0.90872	0.029
52DAP/reference	0.98139	0.351
57DAP/reference	0.94495	0.063

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01386	0.963
17DAP/reference	0.94112	0.281
27DAP/reference	1.05561	0.552
39DAP/reference	1.09174	0.318
41DAP/reference	1.00693	1
42DAP/reference	0.96954	0.445
43DAP/reference	0.97517	0.503
47DAP/reference	0.96502	0.357
52DAP/reference	1.01556	0.904
57DAP/reference	0.86193	0.033

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.00288	1
26DAP/20DAP	0.99401	1
34DAP/26DAP	0.99137	1
51DAP/34DAP	1.07167	0.496
52DAP/51DAP	1.03038	0.776
53DAP/52DAP	0.99965	1
55DAP/53DAP	1.03788	0.834
57DAP/55DAP	1.11543	1
62DAP/57DAP	1.05056	0.767
68DAP/62DAP	1.1388	0.689
68DAP/14DAP	1.24468	0.249

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.97512	0.358

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.09526	0.113
Mature Green Tomato/Ripe Tomato	1.77807	0.038
Immature Eggplant/Mature Eggplant	1.20575	0.123
Ripe Pepper/Ripe Tomato	2.49257	0.258
Mature Eggplant/Ripe Tomato	1.45755

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91756	0.944
1-1-2/M82	1.03708	1
12-2/M82	0.94305	0.955
12-4/M82	1.18636	1
1-3/M82	1.00085	1
2-1-1/M82	0.93279	1
2-1/M82	0.95462	1
2-6/M82	0.92374	1
3-2/M82	1.05519
4-1-1/M82	0.99197	1
4-1/M82	1.22312	1
4-3-2/M82	N/A	N/A
4-3/M82	0.94592	0.72
5-3/M82	1.00322	1
6-2/M82	0.96877	1
6-3/M82	1.06066	1
7-1/M82	1.02497	0.598
7-2/M82	0.94605	0.881
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.84306	0.321
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	0.5152	1
IL7-3/WTpooled	N/A	N/A
IL12-4/WTpooled	0.99962
IL1-4/WTpooled	0.87423	0.444
WT/WTpooled	N/A	N/A

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	0.93147	1
DC3000/delta hrp 6h	0.98198	0.95
DC3000/delta hrp 12h	1.00143	1
DC3000/delta hrp 24h	1.03682	0.516

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.95688	0.765
DC3000 delta B/DC3000 delta AB	0.97929	0.693

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.87596	1
Exp 36h	1.00895	1
Exp 60h	0.87742	0.343

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

hybridization	ratio	FDR (corrected p value)
self-self	0.9986	1
Var 0h	0.66733	0.933
Var 12h I row2-row1	1.10257	0.224
Var 12h NI row2-row1	1.01253	1
Var 36h I row2-row1	0.93274	1
Var 36h NI row2-row1	1.01255	1
Var 60h I row2-row1	1.15169	0.562
Var 60h NI row2-row1	1.03703	1
Time course 0hI-0hNI	1.09464	0.852
Time course 12hI-12hNI	1.03901	0.777
Time course 36hI-36hNI	0.94686	0.337
Time course 60hI-60hNI	0.98858	1

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)	1.01561	0.654
transgenic ySAMdc/azygous control (breaker)	1.32391	0.162
transgenic ySAMdc/azygous control (red)	1.11323	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.99322	0.588

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.09005	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.11771	0.14
Manapal/WT (break)	1.04408	1
Manapal/WT (red)	0.82585	0.242