Tomato Functional Genomics Database (TFGD)

Expression of 1-1-1.4.10.19

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.37118	0.575
27DAP/17DAP	0.96298	0.967
39DAP/27DAP	1.07223	0.816
41DAP/39DAP	0.91186	0.632
42DAP/41DAP	1.31358	0.712
43DAP/42DAP	0.99609	0.937
47DAP/43DAP	0.88248	0.609
52DAP/47DAP	1.0116	0.948
57DAP/52DAP	1.09152	0.837

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03811	0.735
17DAP/reference	0.93586	0.393
27DAP/reference	0.87523	0.176
39DAP/reference	0.90142	0.342
41DAP/reference	0.93794	0.434
42DAP/reference	0.93551	0.111
43DAP/reference	0.77243	0.028
47DAP/reference	0.94936	0.242
52DAP/reference	0.79287	0.111
57DAP/reference	0.88047	0.096

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01398	0.975
27DAP/17DAP	0.98617	0.919
39DAP/27DAP	1.0094	0.799
41DAP/39DAP	1.06498	0.674
42DAP/41DAP	0.99789	0.924
43DAP/42DAP	1.01822	0.627
47DAP/43DAP	1.00426	0.973
52DAP/47DAP	0.95507	0.778
57DAP/52DAP	0.93471	0.507
57DAP/7DAP	1.10046	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.87617	0.122
17DAP/reference	0.66756	0.012
27DAP/reference	0.54041	0.01
39DAP/reference	0.49821	0.011
41DAP/reference	0.6256	0.016
42DAP/reference	0.54389	0.013
43DAP/reference	0.53484	0.015
47DAP/reference	0.7383	0.168
52DAP/reference	0.43638	0.01
57DAP/reference	0.45147	0.008

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.05329	0.75
17DAP/reference	1.14763	0.448
27DAP/reference	1.29525	0.139
39DAP/reference	1.17023	0.502
41DAP/reference	1.09185	0.548
42DAP/reference	1.16787	0.086
43DAP/reference	0.74752	0.108
47DAP/reference	1.1342	0.218
52DAP/reference	0.86488	0.007
57DAP/reference	0.73603	0.054

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.91858	0.391
17DAP/reference	1.06653	0.87
27DAP/reference	0.59037	0.048
39DAP/reference	0.61655	0.013
41DAP/reference	0.63987	0.064
42DAP/reference	0.70606	0.059
43DAP/reference	0.7533	0.071
47DAP/reference	0.70817	0.008
52DAP/reference	0.88737	0.385
57DAP/reference	0.83203	0.134

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.58878
26DAP/20DAP	0.97503	1
34DAP/26DAP	0.89783	0.61
51DAP/34DAP	0.99109	0.911
52DAP/51DAP	1.03037	0.708
53DAP/52DAP	1.03844	0.858
55DAP/53DAP	1.08396	0.693
57DAP/55DAP	1.11636	0.805
62DAP/57DAP	0.96789	0.994
68DAP/62DAP	0.76906	0.464
68DAP/14DAP	0.77885	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09942	0.306

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.10511	0.058
Mature Green Tomato/Ripe Tomato	1.26901	0.237
Immature Eggplant/Mature Eggplant	0.61663	0.086
Ripe Pepper/Ripe Tomato	0.98844	1
Mature Eggplant/Ripe Tomato	3.0937	0.373

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.78883	0.455
1-1-2/M82	1.19682	1
12-2/M82	0.74889	0.862
12-4/M82	0.90463	1
1-3/M82	1.20148	1
2-1-1/M82	0.80431	0.465
2-1/M82	0.75895	0.325
2-6/M82	1.34243	0.452
3-2/M82	1.08179	0.463
4-1-1/M82	0.82958	1
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	0.75651	1
5-3/M82	0.87334	0.364
6-2/M82	1.02717	1
6-3/M82	1.40533	0.971
7-1/M82	1.05436	1
7-2/M82	2.35373	0.291
9-3-2/M82	1.31739	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.07686	0.365
IL2-6/WTpooled	0.83407	0.473
IL7-5/WTpooled	0.93661	1
IL7-3/WTpooled	1.347	0.362
IL12-4/WTpooled	0.85181	0.71
IL1-4/WTpooled	1.13566	1
WT/WTpooled	1.03279	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	1.13732	1

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.91171	0.839
DC3000/delta hrp 6h	1.29541	0.978
DC3000/delta hrp 12h	1.17546	1
DC3000/delta hrp 24h	0.54575	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.08657	0.229
DC3000 delta B/DC3000 delta AB	0.98313	0.916

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.02393	1
Exp 36h	0.80441	0.471
Exp 60h	0.68751	0.386

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99391	1
Var 0h	1.80142	0.936
Var 12h I row2-row1	0.97158	0.856
Var 12h NI row2-row1	0.91913	0.713
Var 36h I row2-row1	1.02554	1
Var 36h NI row2-row1	0.97944	0.743
Var 60h I row2-row1	1.32288	0.562
Var 60h NI row2-row1	1.0777	0.904
Time course 0hI-0hNI	0.9996	1
Time course 12hI-12hNI	0.92748	0.497
Time course 36hI-36hNI	0.93242	0.25
Time course 60hI-60hNI	0.65366	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)	1.02807	0.863
transgenic ySAMdc/azygous control (breaker)	0.90191	0.251
transgenic ySAMdc/azygous control (red)	0.90684	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98567	0.673

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.5505	0.222

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.77054	0.083
Manapal/WT (break)	1.2648	0.14
Manapal/WT (red)	1.51181	0.133