Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.2.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.63255	0.029
27DAP/17DAP	0.82633	0.522
39DAP/27DAP	0.77726	0.443
41DAP/39DAP	1.2027	0.321
42DAP/41DAP	1.1009	0.916
43DAP/42DAP	1.04532	1
47DAP/43DAP	0.92146	0.71
52DAP/47DAP	1.373	0.371
57DAP/52DAP	0.91379	0.879

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98182	0.601
17DAP/reference	1.02814	0.21
27DAP/reference	0.99438	0.797
39DAP/reference	0.99051	0.841
41DAP/reference	0.97783	0.542
42DAP/reference	0.93718	0.023
43DAP/reference	0.95002	0.519
47DAP/reference	0.88485	0.007
52DAP/reference	0.86877	0.05
57DAP/reference	0.88506	0.018

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.9024	0.251
27DAP/17DAP	1.08378	0.639
39DAP/27DAP	1.02152	0.718
41DAP/39DAP	0.90435	0.276
42DAP/41DAP	1.03655	0.836
43DAP/42DAP	0.97598	0.751
47DAP/43DAP	1.02008	0.951
52DAP/47DAP	1.10939	0.598
57DAP/52DAP	1.04939	0.753
57DAP/7DAP	0.94606	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.01345	0.98
17DAP/reference	0.93901	0.049
27DAP/reference	0.92783	0.033
39DAP/reference	0.88582	0.011
41DAP/reference	0.889	0.025
42DAP/reference	0.93719	0.1
43DAP/reference	0.89916	0.032
47DAP/reference	0.82888	0.04
52DAP/reference	0.88664	0.014
57DAP/reference	0.8764	0.015

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.14587	0.038
17DAP/reference	1.19465	0.021
27DAP/reference	1.0011	0.79
39DAP/reference	0.90482	0.027
41DAP/reference	0.91538	0.108
42DAP/reference	0.8801	0.081
43DAP/reference	1.06087	0.553
47DAP/reference	0.92614	0.064
52DAP/reference	1.01805	1
57DAP/reference	1.0475	0.244

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16785	0.044
17DAP/reference	1.03483	0.42
27DAP/reference	1.05222	0.425
39DAP/reference	0.89292	0.018
41DAP/reference	0.92724	0.028
42DAP/reference	0.88365	0.108
43DAP/reference	0.88473	0.081
47DAP/reference	0.88998	0.224
52DAP/reference	0.87885	0.166
57DAP/reference	0.73473	0.016

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.01182	1
26DAP/20DAP	1.16902	0.471
34DAP/26DAP	1.13197	1
51DAP/34DAP	0.72599	0.088
52DAP/51DAP	1.25113	0.207
53DAP/52DAP	0.91682	0.409
55DAP/53DAP	1.0106	1
57DAP/55DAP	0.88573	0.539
62DAP/57DAP	1.42111	0.767
68DAP/62DAP	0.99368	0.885
68DAP/14DAP	1.01033	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.72365	0.155

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	2.98801	0.058
Mature Green Tomato/Ripe Tomato	2.11149	0.053
Immature Eggplant/Mature Eggplant	0.2578	0.057
Ripe Pepper/Ripe Tomato	25.2421	0.258
Mature Eggplant/Ripe Tomato	18.9973	0.26

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.08982	1
1-1-2/M82	1.17147
12-2/M82	1.02164	1
12-4/M82	0.96246	1
1-3/M82	0.88042	0.441
2-1-1/M82	N/A	N/A
2-1/M82	N/A	N/A
2-6/M82	0.98852	1
3-2/M82	0.87668
4-1-1/M82	1.07388	1
4-1/M82	1.05634
4-3-2/M82	0.77497	1
4-3/M82	0.8275	0.72
5-3/M82	0.95047	0.447
6-2/M82	0.91685
6-3/M82	1.06639
7-1/M82	0.85355	0.509
7-2/M82	1.23384
9-3-2/M82	0.73798	0.449

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.78036	0.383
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.97655	1
IL12-4/WTpooled	0.92273	0.566
IL1-4/WTpooled	0.81188
WT/WTpooled	1.00088	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	0.75107	0.256

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.97291	1
DC3000/delta hrp 6h	0.9445	0.95
DC3000/delta hrp 12h	0.9887	1
DC3000/delta hrp 24h	0.61036	0.034

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.69587	0.024
DC3000 delta B/DC3000 delta AB	0.80058	0.137

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09246	1
Exp 36h	0.69705	0.504
Exp 60h	0.56362	0.249

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

hybridization	ratio	FDR (corrected p value)
self-self	0.99577	1
Var 0h	1.05425	1
Var 12h I row2-row1	0.78169	0.357
Var 12h NI row2-row1	0.93678	0.546
Var 36h I row2-row1	0.9477	0.575
Var 36h NI row2-row1	1.18622	1
Var 60h I row2-row1	1.13625	1
Var 60h NI row2-row1	1.08386	1
Time course 0hI-0hNI	0.97181	0.821
Time course 12hI-12hNI	0.94903	0.597
Time course 36hI-36hNI	0.74936	0.023
Time course 60hI-60hNI	0.24138	0.006

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)	0.70911	0.297
transgenic ySAMdc/azygous control (breaker)	3.11287	0.248
transgenic ySAMdc/azygous control (red)	1.06159	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.01666	0.656

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	4.35662	0.239

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.94924	0.096
Manapal/WT (break)	1.39038	1
Manapal/WT (red)	1.17225	1