Tomato Functional Genomics Database (TFGD)

Expression of 1-1-5.3.17.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.03095	0.975
27DAP/17DAP	0.95488	0.899
39DAP/27DAP	1.0626	1
41DAP/39DAP	1.55969	0.372
42DAP/41DAP	1.06032	1
43DAP/42DAP	0.88526	0.713
47DAP/43DAP	0.84842	0.526
52DAP/47DAP	2.0554	0.238
57DAP/52DAP	0.74732	0.666

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.32913	0.014
17DAP/reference	1.28666	0.012
27DAP/reference	1.10047	0.365
39DAP/reference	1.19865	0.114
41DAP/reference	1.60568	0.014
42DAP/reference	1.34485	0.001
43DAP/reference	1.04208	0.838
47DAP/reference	1.1931	0.001
52DAP/reference	1.21002	0.019
57DAP/reference	0.92783	0.308

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.99625	0.871
27DAP/17DAP	1.01942	1
39DAP/27DAP	1.04409	0.758
41DAP/39DAP	1.08147	0.895
42DAP/41DAP	0.98247	0.777
43DAP/42DAP	1.01771	1
47DAP/43DAP	0.9813	0.923
52DAP/47DAP	0.96293	0.886
57DAP/52DAP	0.92062	0.328
57DAP/7DAP	0.94219	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.80895	0.122
17DAP/reference	0.90949	0.192
27DAP/reference	1.18919	0.16
39DAP/reference	0.80466	0.012
41DAP/reference	0.84779	0.06
42DAP/reference	0.91577	0.055
43DAP/reference	0.72544	0.011
47DAP/reference	0.9242	0.383
52DAP/reference	0.75109	0.009
57DAP/reference	0.67221	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.3176	0.325
17DAP/reference	1.4157	0.107
27DAP/reference	1.20929	0.217
39DAP/reference	1.46364	0.011
41DAP/reference	1.42073	0.017
42DAP/reference	1.34944	0.033
43DAP/reference	1.48185	0.015
47DAP/reference	1.2807	0.008
52DAP/reference	1.6565	0.006
57DAP/reference	1.48465	0.007

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9692	0.489
17DAP/reference	1.02923	1
27DAP/reference	0.73511	0.023
39DAP/reference	0.84659	0.133
41DAP/reference	0.89801	0.043
42DAP/reference	1.29578	0.046
43DAP/reference	1.1261	1
47DAP/reference	1.33042	0.099
52DAP/reference	0.99661	0.871
57DAP/reference	1.06418	0.801

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.32359	0.966
26DAP/20DAP	0.84203	0.317
34DAP/26DAP	1.12346	1
51DAP/34DAP	1.00252	0.993
52DAP/51DAP	1.10302	0.51
53DAP/52DAP	1.15625	0.489
55DAP/53DAP	1.26445	0.382
57DAP/55DAP	1.06921	0.841
62DAP/57DAP	1.12694	0.902
68DAP/62DAP	0.83504	0.464
68DAP/14DAP	0.64467	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96692	0.399

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	1.23904	0.267
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	N/A	N/A
Mature Eggplant/Ripe Tomato	N/A	N/A

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	N/A	N/A
1-1-2/M82	0.73999
12-2/M82	N/A	N/A
12-4/M82	0.53406
1-3/M82	N/A	N/A
2-1-1/M82	0.86142
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	0.92254
4-1-1/M82	N/A	N/A
4-1/M82	0.85192	1
4-3-2/M82	1.27275
4-3/M82	N/A	N/A
5-3/M82	N/A	N/A
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	0.76526	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.95484	1
IL2-6/WTpooled	1.17468	0.419
IL7-5/WTpooled	0.73439	0.559
IL7-3/WTpooled	1.00494	1
IL12-4/WTpooled	1.04635	0.839
IL1-4/WTpooled	0.85333	0.699
WT/WTpooled	1.05561	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	0.87434	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.48284	0.671
DC3000/delta hrp 6h	N/A	N/A
DC3000/delta hrp 12h	1.07676	1
DC3000/delta hrp 24h	0.80135	0.066

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.8596	0.293
DC3000 delta B/DC3000 delta AB	0.84241	0.172

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	1.01996	1
Var 0h	1.33559	0.936
Var 12h I row2-row1	0.99897	1
Var 12h NI row2-row1	0.9424	0.906
Var 36h I row2-row1	0.75174	0.805
Var 36h NI row2-row1	1.04079	1
Var 60h I row2-row1	1.3145	0.562
Var 60h NI row2-row1	1.15825	0.904
Time course 0hI-0hNI	1.02422	0.719
Time course 12hI-12hNI	0.96939	0.65
Time course 36hI-36hNI	0.91222	0.134
Time course 60hI-60hNI	0.75362	0.015

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)	1.05445	0.92

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	1.17649	1

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)	1.2141	1
Manapal/WT (red)	N/A	N/A