Tomato Functional Genomics Database (TFGD)

Expression of 1-1-8.4.2.15

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06502	0.863
27DAP/17DAP	1.13166	0.849
39DAP/27DAP	0.73621	0.278
41DAP/39DAP	1.24166	0.753
42DAP/41DAP	0.93162	1
43DAP/42DAP	1.18504	0.867
47DAP/43DAP	1.22713	0.394
52DAP/47DAP	0.89541	0.685
57DAP/52DAP	0.91495	0.509

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.77919	0.027
17DAP/reference	0.78485	0.008
27DAP/reference	0.83429	0.022
39DAP/reference	0.90131	0.159
41DAP/reference	0.80087	0.018
42DAP/reference	0.97415	0.295
43DAP/reference	0.86734	0.073
47DAP/reference	0.95544	0.148
52DAP/reference	0.97324	0.475
57DAP/reference	1.14804	0.082

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.01852	0.91
27DAP/17DAP	0.96951	0.475
39DAP/27DAP	0.98454	0.759
41DAP/39DAP	1.04355	0.674
42DAP/41DAP	0.98058	0.772
43DAP/42DAP	1.02696	0.297
47DAP/43DAP	0.95685	0.656
52DAP/47DAP	0.96516	0.778
57DAP/52DAP	0.92297	0.337
57DAP/7DAP	0.99061	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.16947	0.16
17DAP/reference	1.16124	0.269
27DAP/reference	1.02845	1
39DAP/reference	1.15246	0.391
41DAP/reference	1.06729	0.593
42DAP/reference	1.18274	0.076
43DAP/reference	1.06171	1
47DAP/reference	1.16255	0.493
52DAP/reference	1.34149	0.024
57DAP/reference	1.30423	0.25

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.82741	0.043
17DAP/reference	0.74964	0.014
27DAP/reference	0.87831	0.155
39DAP/reference	0.9456	0.339
41DAP/reference	1.03489	1
42DAP/reference	1.03857	0.987
43DAP/reference	1.04705	0.801
47DAP/reference	1.09869	0.366
52DAP/reference	0.96895	0.351
57DAP/reference	0.82774	0.054

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.03396	1
17DAP/reference	1.00451	0.825
27DAP/reference	1.08535	0.34
39DAP/reference	1.24835	0.032
41DAP/reference	1.22903	0.044
42DAP/reference	1.11933	0.459
43DAP/reference	1.2065	0.25
47DAP/reference	0.95976	0.335
52DAP/reference	1.01712	0.965
57DAP/reference	1.22879	0.153

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	0.90885	1
26DAP/20DAP	0.99862	1
34DAP/26DAP	1.04134	1
51DAP/34DAP	0.88604	0.127
52DAP/51DAP	0.90985	0.151
53DAP/52DAP	1.03341	0.723
55DAP/53DAP	0.96283	0.577
57DAP/55DAP	1.0297	0.969
62DAP/57DAP	0.9302	0.994
68DAP/62DAP	1.50398	0.028
68DAP/14DAP	2.1153	0.021

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.96894	0.607

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	N/A	N/A
Mature Green Tomato/Ripe Tomato	0.98907	0.774
Immature Eggplant/Mature Eggplant	N/A	N/A
Ripe Pepper/Ripe Tomato	0.75328
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	1.11925	1
12-2/M82	N/A	N/A
12-4/M82	0.86914	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	N/A	N/A
3-2/M82	0.99624
4-1-1/M82	N/A	N/A
4-1/M82	0.69679
4-3-2/M82	0.76989
4-3/M82	N/A	N/A
5-3/M82	0.7998
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	0.96626
7-2/M82	N/A	N/A
9-3-2/M82	0.97499	1

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	N/A	N/A
IL2-6/WTpooled	0.98627	1
IL7-5/WTpooled	N/A	N/A
IL7-3/WTpooled	0.80515
IL12-4/WTpooled	0.71722	0.478
IL1-4/WTpooled	0.91288
WT/WTpooled	0.97653	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	1.09841	0.853

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	1.11339	0.921
DC3000/delta hrp 6h	2.26002
DC3000/delta hrp 12h	0.97463	1
DC3000/delta hrp 24h	0.85098	0.387

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.67618	0.024
DC3000 delta B/DC3000 delta AB	0.58	0.022

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	1.19294	1
Exp 36h	0.78404	0.321
Exp 60h	0.91496	0.754

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

hybridization	ratio	FDR (corrected p value)
self-self	0.97354	1
Var 0h	0.80405	0.782
Var 12h I row2-row1	1.22416	0.235
Var 12h NI row2-row1	1.04417	0.649
Var 36h I row2-row1	1.24581	1
Var 36h NI row2-row1	0.87196	0.61
Var 60h I row2-row1	1.10535	1
Var 60h NI row2-row1	1.12568	0.904
Time course 0hI-0hNI	1.00949	1
Time course 12hI-12hNI	1.00947	0.867
Time course 36hI-36hNI	0.95644	0.241
Time course 60hI-60hNI	1.0847	0.216

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)	0.76564	0.272
transgenic ySAMdc/azygous control (breaker)	0.97025	1
transgenic ySAMdc/azygous control (red)	0.91656	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	0.94213	0.277

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.14494	0.277

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.07371	0.093
Manapal/WT (break)	0.73586	0.299
Manapal/WT (red)	0.93977	0.607