Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.3.13.8

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.82775	0.285
27DAP/17DAP	1.33009	0.742
39DAP/27DAP	0.94139	0.62
41DAP/39DAP	1.83862	0.339
42DAP/41DAP	1.04242	1
43DAP/42DAP	1.00317	0.937
47DAP/43DAP	0.96341	0.768
52DAP/47DAP	1.26529	0.538
57DAP/52DAP	0.72375	0.745

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91045	0.145
17DAP/reference	0.88682	0.046
27DAP/reference	0.96718	0.595
39DAP/reference	0.95835	0.467
41DAP/reference	0.84072	0.201
42DAP/reference	0.84552	0.006
43DAP/reference	0.83392	0.073
47DAP/reference	1.01377	0.764
52DAP/reference	1.05844	0.607
57DAP/reference	1.28816	0.014

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.81928	0.336
27DAP/17DAP	1.56722	0.033
39DAP/27DAP	0.83046	0.179
41DAP/39DAP	0.94856	0.875
42DAP/41DAP	0.92086	0.473
43DAP/42DAP	1.07923	0.25
47DAP/43DAP	0.91196	0.559
52DAP/47DAP	0.9102	0.726
57DAP/52DAP	0.81797	0.317
57DAP/7DAP	1.22314	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.74969	0.082
17DAP/reference	0.75434	0.031
27DAP/reference	1.0916	1
39DAP/reference	0.74894	0.02
41DAP/reference	0.81683	0.052
42DAP/reference	1.00391	0.828
43DAP/reference	0.79206	0.029
47DAP/reference	0.79967	0.222
52DAP/reference	0.68909	0.013
57DAP/reference	0.80058	0.022

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.85801	0.053
17DAP/reference	0.8217	0.063
27DAP/reference	1.03	1
39DAP/reference	0.97487	0.469
41DAP/reference	1.08723	0.573
42DAP/reference	1.06959	0.777
43DAP/reference	1.3349	0.327
47DAP/reference	1.13167	0.247
52DAP/reference	0.97132	0.351
57DAP/reference	0.88666	0.194

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.72542	0.026
17DAP/reference	0.90597	0.322
27DAP/reference	0.83756	0.133
39DAP/reference	0.79381	0.033
41DAP/reference	0.93745	0.371
42DAP/reference	1.02276	0.979
43DAP/reference	0.79024	0.039
47DAP/reference	0.95187	0.434
52DAP/reference	1.06352	0.876
57DAP/reference	1.40323	0.045

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.03484	1
26DAP/20DAP	0.65334	0.512
34DAP/26DAP	1.20101	1
51DAP/34DAP	0.8612	0.164
52DAP/51DAP	1.04962
53DAP/52DAP	1.18933	0.307
55DAP/53DAP	1.08636	0.527
57DAP/55DAP	1.05007	1
62DAP/57DAP	0.84428	0.466
68DAP/62DAP	1.69416	0.515
68DAP/14DAP	1.02512	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.74268	0.033

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.56314	0.157
Mature Green Tomato/Ripe Tomato	0.42119	0.287
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	1.3287	1
Mature Eggplant/Ripe Tomato	0.58155	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.17779	1
1-1-2/M82	1.06348	1
12-2/M82	1.28895	1
12-4/M82	1.22293	1
1-3/M82	0.86301
2-1-1/M82	0.66012
2-1/M82	N/A	N/A
2-6/M82	0.91981	1
3-2/M82	N/A	N/A
4-1-1/M82	1.04197	1
4-1/M82	1.06579	1
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.0586	1
6-2/M82	0.69272
6-3/M82	0.94406	1
7-1/M82	0.86789
7-2/M82	0.99665	1
9-3-2/M82	0.87427

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	1.07279	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.9449	1
IL12-4/WTpooled	0.98356	1
IL1-4/WTpooled	0.85033
WT/WTpooled	1.0821	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	0.8931

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.07605	0.823
DC3000/delta hrp 6h	1.13297	0.672
DC3000/delta hrp 12h	1.13194	1
DC3000/delta hrp 24h	0.96168	0.75

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.91187	0.841
DC3000 delta B/DC3000 delta AB	0.98861	0.983

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.89297	1
Exp 36h	1.03464	1
Exp 60h	1.10243	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.06039	1
Var 0h	0.84815	1
Var 12h I row2-row1	1.16752	0.263
Var 12h NI row2-row1	1.00373	1
Var 36h I row2-row1	0.88848	1
Var 36h NI row2-row1	1.32979	0.482
Var 60h I row2-row1	1.0124	1
Var 60h NI row2-row1	1.26606	0.904
Time course 0hI-0hNI	0.95319	0.754
Time course 12hI-12hNI	1.12096	0.222
Time course 36hI-36hNI	0.8744	0.108
Time course 60hI-60hNI	0.4349	0.007

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)	0.89815	0.391
transgenic ySAMdc/azygous control (breaker)	0.80084	0.251
transgenic ySAMdc/azygous control (red)	1.10641	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03587	0.125

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.08954	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.16346	0.307
Manapal/WT (break)	0.73451	0.333
Manapal/WT (red)	1.14282	0.222