Tomato Functional Genomics Database (TFGD)

Expression of 1-1-7.2.8.10

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.52568	0.463
27DAP/17DAP	1.20711	0.847
39DAP/27DAP	1.26329	0.583
41DAP/39DAP	0.97364	0.845
42DAP/41DAP	1.31581	0.691
43DAP/42DAP	1.00402	0.937
47DAP/43DAP	1.21755	0.733
52DAP/47DAP	0.89487	0.695
57DAP/52DAP	0.89806	0.903

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00665	0.806
17DAP/reference	1.23356	0.014
27DAP/reference	1.13911	0.478
39DAP/reference	1.12242	0.224
41DAP/reference	1.17186	0.054
42DAP/reference	0.9853	0.484
43DAP/reference	1.06755	0.425
47DAP/reference	0.9153	0.148
52DAP/reference	0.9874	0.58
57DAP/reference	0.81614	0.015

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.26065	0.258
27DAP/17DAP	1.10612	0.872
39DAP/27DAP	1.11781	0.698
41DAP/39DAP	1.10394	1
42DAP/41DAP	1.14341	1
43DAP/42DAP	1.29234	0.035
47DAP/43DAP	1.10779	0.182
52DAP/47DAP	0.95256	0.837
57DAP/52DAP	0.852	0.356
57DAP/7DAP	1.54241	0.249

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.00041	0.758
17DAP/reference	0.96876	0.447
27DAP/reference	0.86806	0.066
39DAP/reference	0.95084	0.354
41DAP/reference	0.84659	0.056
42DAP/reference	0.93196	0.338
43DAP/reference	0.72185	0.015
47DAP/reference	0.96307	0.671
52DAP/reference	0.81899	0.024
57DAP/reference	0.82902	0.027

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99277	0.786
17DAP/reference	1.04305	1
27DAP/reference	0.91812	0.249
39DAP/reference	1.00078	0.642
41DAP/reference	0.88455	0.141
42DAP/reference	0.94017	0.237
43DAP/reference	1.1135	0.929
47DAP/reference	0.9135	0.113
52DAP/reference	1.0382	0.417
57DAP/reference	1.77368	0.062

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.8915	0.249
17DAP/reference	0.9747	0.624
27DAP/reference	0.81167	0.113
39DAP/reference	0.80459	0.063
41DAP/reference	0.88636	0.132
42DAP/reference	0.7105	0.028
43DAP/reference	0.75446	0.032
47DAP/reference	1.10213	0.443
52DAP/reference	0.79225	0.177
57DAP/reference	0.76613	0.073

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.37318	0.966
26DAP/20DAP	N/A	N/A
34DAP/26DAP	1.36372	0.819
51DAP/34DAP	1.58923	0.719
52DAP/51DAP	1.09388	0.925
53DAP/52DAP	1.14069	0.921
55DAP/53DAP	1.03789	0.925
57DAP/55DAP	0.80494	0.433
62DAP/57DAP	1.02803	0.767
68DAP/62DAP	0.88018	0.609
68DAP/14DAP	0.81749	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.64137	0.018

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	N/A	N/A
Immature Eggplant/Mature Eggplant	3.09288
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	0.83404
12-2/M82	N/A	N/A
12-4/M82	0.97596
1-3/M82	N/A	N/A
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	N/A	N/A
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	N/A	N/A
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	1.22327
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	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	1.05375	0.277
IL2-6/WTpooled	1.01696	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.15203	1
IL12-4/WTpooled	0.75769	0.478
IL1-4/WTpooled	1.06243	1
WT/WTpooled	0.78173	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	1.04327	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.94288	1
DC3000/delta hrp 6h	1.05013	1
DC3000/delta hrp 12h	1.0431	1
DC3000/delta hrp 24h	1.50192	0.243

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	N/A	N/A
DC3000 delta B/DC3000 delta AB	N/A	N/A

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	1.05557	1
Var 0h	N/A	N/A
Var 12h I row2-row1	1.17595	0.544
Var 12h NI row2-row1	0.87739	0.627
Var 36h I row2-row1	1.36966	0.489
Var 36h NI row2-row1	0.66795	1
Var 60h I row2-row1	1.08687	0.389
Var 60h NI row2-row1	0.97915	0.69
Time course 0hI-0hNI	1.12803	0.799
Time course 12hI-12hNI	1.04836	1
Time course 36hI-36hNI	0.90699	0.045
Time course 60hI-60hNI	0.72536	0.161

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)	1.12101	0.571
transgenic ySAMdc/azygous control (breaker)	1.30477	0.172
transgenic ySAMdc/azygous control (red)	1.1972	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.98744	0.631

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.14375	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.46269	0.096
Manapal/WT (break)	1.51725	0.14
Manapal/WT (red)	N/A	N/A