Tomato Functional Genomics Database (TFGD)

Expression of 1-1-2.3.14.3

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.25454	0.085
27DAP/17DAP	0.89078	0.717
39DAP/27DAP	1.06828	0.873
41DAP/39DAP	1.11326	0.56
42DAP/41DAP	1.01754	1
43DAP/42DAP	1.05461	1
47DAP/43DAP	1.55505	0.246
52DAP/47DAP	1.49842	0.396
57DAP/52DAP	1.08719	0.962

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.99799	0.756
17DAP/reference	1.09508	0.342
27DAP/reference	1.0397	0.58
39DAP/reference	1.10901	0.524
41DAP/reference	1.10829	0.029
42DAP/reference	1.49023	0.001
43DAP/reference	1.24474
47DAP/reference	1.52632	0.005
52DAP/reference	1.80281
57DAP/reference	1.37125	0.023

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.00934	1
27DAP/17DAP	1.02473	0.942
39DAP/27DAP	1.05687	0.565
41DAP/39DAP	1.1556	0.799
42DAP/41DAP	1.03411	0.879
43DAP/42DAP	1.12676	0.052
47DAP/43DAP	1.04492	0.848
52DAP/47DAP	1.16692	0.474
57DAP/52DAP	1.08423	0.518
57DAP/7DAP	1.00493	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.94541	0.224
17DAP/reference	0.91712	0.094
27DAP/reference	1.44815	0.012
39DAP/reference	1.01358	0.909
41DAP/reference	1.34291	0.011
42DAP/reference	1.77881	0.006
43DAP/reference	1.51785	0.048
47DAP/reference	1.38339	0.029
52DAP/reference	1.28228	0.009
57DAP/reference	0.98748	0.61

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98735	0.786
17DAP/reference	1.29347	0.033
27DAP/reference	1.20178	0.48
39DAP/reference	1.14887	0.316
41DAP/reference	1.52274	0.047
42DAP/reference	1.38975	0.019
43DAP/reference	1.07143	0.977
47DAP/reference	1.23198	0.013
52DAP/reference	1.02791	0.789
57DAP/reference	1.06929	0.593

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.904	0.268
17DAP/reference	1.27801	0.289
27DAP/reference	1.42954	0.015
39DAP/reference	0.98325	0.544
41DAP/reference	1.04377	0.605
42DAP/reference	2.22296	0.007
43DAP/reference	1.72233	0.016
47DAP/reference	1.95362	0.006
52DAP/reference	2.47837	0.027
57DAP/reference	2.95458	0.007

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.99242	1
26DAP/20DAP	0.96203	0.512
34DAP/26DAP	0.93557	0.735
51DAP/34DAP	1.2155	0.079
52DAP/51DAP	1.02934	0.565
53DAP/52DAP	1.14652	0.643
55DAP/53DAP	1.20741	0.614
57DAP/55DAP	1.06168	0.975
62DAP/57DAP	0.98776	0.994
68DAP/62DAP	1.07427	0.912
68DAP/14DAP	0.93279	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.04842	0.558

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	1.25732	0.113
Mature Green Tomato/Ripe Tomato	0.69587	0.021
Immature Eggplant/Mature Eggplant	1.03678	0.606
Ripe Pepper/Ripe Tomato	0.38889	0.293
Mature Eggplant/Ripe Tomato	0.38148	1

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.01452	1
1-1-2/M82	0.8357	1
12-2/M82	0.90798	0.74
12-4/M82	1.08454	0.694
1-3/M82	1.07726	0.479
2-1-1/M82	0.92765	0.565
2-1/M82	0.95203	0.74
2-6/M82	0.95246	1
3-2/M82	1.0127	1
4-1-1/M82	1.07145	1
4-1/M82	1.05711	1
4-3-2/M82	1.0441	1
4-3/M82	0.8925	1
5-3/M82	0.95789	1
6-2/M82	0.93349	1
6-3/M82	0.97781	1
7-1/M82	1.00766	1
7-2/M82	0.91954	0.881
9-3-2/M82	1.17392	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	N/A	N/A
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.0135	1
IL12-4/WTpooled	1.16538	0.737
IL1-4/WTpooled	1.17162
WT/WTpooled	1.00077	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	1.10002	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.99619	1
DC3000/delta hrp 6h	1.00179	0.95
DC3000/delta hrp 12h	1.05332	1
DC3000/delta hrp 24h	1.15534	0.296

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	1.04638	0.333
DC3000 delta B/DC3000 delta AB	1.05205	0.479

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.90149	1
Exp 36h	1.05084	1
Exp 60h	1.14602	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98357	1
Var 0h	0.6234	0.457
Var 12h I row2-row1	1.01375	0.692
Var 12h NI row2-row1	0.8611	0.546
Var 36h I row2-row1	0.97693	1
Var 36h NI row2-row1	0.90228	0.584
Var 60h I row2-row1	0.99154	0.832
Var 60h NI row2-row1	0.93758	0.932
Time course 0hI-0hNI	0.96361	0.755
Time course 12hI-12hNI	0.91214	0.116
Time course 36hI-36hNI	0.97669	0.494
Time course 60hI-60hNI	0.93552	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)	0.91224	0.324
transgenic ySAMdc/azygous control (breaker)	1.19907	0.248
transgenic ySAMdc/azygous control (red)	0.98222	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.93316	0.046

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	0.69032	0.238

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	0.67047	1
Manapal/WT (break)	0.76694	1
Manapal/WT (red)	1.51906	0.413