Tomato Functional Genomics Database (TFGD)

Expression of 1-1-3.1.2.13

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	0.68418	0.166
27DAP/17DAP	1.19266	0.872
39DAP/27DAP	0.93469	0.67
41DAP/39DAP	1.4709	0.212
42DAP/41DAP	1.25393	0.899
43DAP/42DAP	0.93881	0.877
47DAP/43DAP	1.07751	0.793
52DAP/47DAP	0.87388	0.618
57DAP/52DAP	1.00566	0.983

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.9146	0.254
17DAP/reference	0.86141	0.069
27DAP/reference	1.00441	1
39DAP/reference	0.80994	0.011
41DAP/reference	0.79008	0.039
42DAP/reference	0.8494	0.007
43DAP/reference	0.94777	0.346
47DAP/reference	0.91411	0.127
52DAP/reference	1.06687	0.335
57DAP/reference	1.08522	0.202

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09811	0.687
27DAP/17DAP	0.91539	0.821
39DAP/27DAP	0.942	0.587
41DAP/39DAP	0.89014	0.372
42DAP/41DAP	0.93524	0.584
43DAP/42DAP	0.99177	0.96
47DAP/43DAP	1.10036	0.956
52DAP/47DAP	0.92769	0.729
57DAP/52DAP	0.93749	0.581
57DAP/7DAP	1.36949	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.04031	0.894
17DAP/reference	1.40657	0.012
27DAP/reference	1.05244	0.371
39DAP/reference	0.98365	0.552
41DAP/reference	1.06583	0.655
42DAP/reference	1.12275	0.132
43DAP/reference	1.32608	0.111
47DAP/reference	1.00564	1
52DAP/reference	1.20992	0.034
57DAP/reference	1.09655	0.382

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.89603	0.231
17DAP/reference	0.7949	0.02
27DAP/reference	0.88858	0.062
39DAP/reference	0.89701	0.033
41DAP/reference	0.97881	0.459
42DAP/reference	0.83935	0.021
43DAP/reference	0.84104	0.144
47DAP/reference	0.79242	0.077
52DAP/reference	1.04403	0.702
57DAP/reference	0.79955	0.019

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.98888	0.653
17DAP/reference	0.90672	0.389
27DAP/reference	1.24363	0.023
39DAP/reference	1.04806	0.752
41DAP/reference	0.97767	0.618
42DAP/reference	0.99939	0.816
43DAP/reference	0.91512	0.319
47DAP/reference	0.83477	0.066
52DAP/reference	1.20112	0.657
57DAP/reference	1.08717	0.214

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.23346	0.878
26DAP/20DAP	0.99111	1
34DAP/26DAP	1.16303	1
51DAP/34DAP	0.82182	0.292
52DAP/51DAP	1.01712	1
53DAP/52DAP	0.92977	0.79
55DAP/53DAP	1.17401	0.908
57DAP/55DAP	0.90077	0.67
62DAP/57DAP	N/A	N/A
68DAP/62DAP	2.39343	0.115
68DAP/14DAP	1.4237	0.131

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	1.09689	1

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.63108	0.072
Immature Eggplant/Mature Eggplant	1.6903
Ripe Pepper/Ripe Tomato	0.98206	1
Mature Eggplant/Ripe Tomato	2.49013

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	1.03721	0.877
1-1-2/M82	N/A	N/A
12-2/M82	N/A	N/A
12-4/M82	0.92789	1
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	0.97391
3-2/M82	N/A	N/A
4-1-1/M82	N/A	N/A
4-1/M82	1.51585
4-3-2/M82	N/A	N/A
4-3/M82	N/A	N/A
5-3/M82	0.97622	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	N/A	N/A
7-2/M82	0.81286
9-3-2/M82	N/A	N/A

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.93594	0.473
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	1.16801	1
IL12-4/WTpooled	1.18376	0.516
IL1-4/WTpooled	0.97383
WT/WTpooled	0.90544	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	0.93993	0.75

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.14319	0.846
DC3000/delta hrp 6h	1.16754	1
DC3000/delta hrp 12h	1.02548	1
DC3000/delta hrp 24h	0.41241	0.034

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	0.17024

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.09709	1
Exp 36h	0.80464	0.749
Exp 60h	1.0293	1

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

hybridization	ratio	FDR (corrected p value)
self-self	1.01196	1
Var 0h	1.16365	0.339
Var 12h I row2-row1	0.58827	0.467
Var 12h NI row2-row1	1.01497	1
Var 36h I row2-row1	0.87705	0.805
Var 36h NI row2-row1	0.69964	0.375
Var 60h I row2-row1	1.0392	1
Var 60h NI row2-row1	0.88009	0.818
Time course 0hI-0hNI	0.81437	0.308
Time course 12hI-12hNI	1.39022	0.682
Time course 36hI-36hNI	1.11859	0.58
Time course 60hI-60hNI	1.04964	0.495

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)	0.95545	0.272
transgenic ySAMdc/azygous control (breaker)	0.99466	1
transgenic ySAMdc/azygous control (red)	1.01839	0.92

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.97073	0.08

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.05259	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.14364	0.14
Manapal/WT (break)	0.99781	1
Manapal/WT (red)	1.24156	0.413