Tomato Functional Genomics Database (TFGD)

Expression of 1-1-4.1.15.21

Experiment: Wild type tomato fruit development (set 1)

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.06533	0.851
27DAP/17DAP	1.09011	0.872
39DAP/27DAP	1.01278	0.876
41DAP/39DAP	1.02765	1
42DAP/41DAP	1.11966	0.899
43DAP/42DAP	1.04447	1
47DAP/43DAP	1.04631	0.926
52DAP/47DAP	0.82354	0.554
57DAP/52DAP	1.09452	0.969

Experiment: Wild type tomato fruit development (set 2)

hybridization	ratio	FDR (corrected p value)
7DAP/reference	1.08694	0.278
17DAP/reference	0.95191	0.208
27DAP/reference	1.01436	0.863
39DAP/reference	1.00624	0.903
41DAP/reference	1.02253	0.667
42DAP/reference	0.98362	0.372
43DAP/reference	0.962	0.48
47DAP/reference	1.06117	0.264
52DAP/reference	1.08802	0.498
57DAP/reference	1.005	1

Experiment: tomato Never-ripe mutant fruit development

hybridization	ratio	FDR (corrected p value)
17DAP/7DAP	1.09116	0.536
27DAP/17DAP	0.99399	0.943
39DAP/27DAP	0.93822	0.419
41DAP/39DAP	1.10717	0.579
42DAP/41DAP	1.0064	1
43DAP/42DAP	1.02554	0.746
47DAP/43DAP	1.01121	0.973
52DAP/47DAP	0.92229	0.624
57DAP/52DAP	1.01073	1
57DAP/7DAP	1.02589	1

Experiment: tomato rin mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97957	0.55
17DAP/reference	1.03102	0.971
27DAP/reference	0.98114	0.494
39DAP/reference	1.12887	0.46
41DAP/reference	1.04284	0.723
42DAP/reference	1.10909	0.889
43DAP/reference	0.8505	0.047
47DAP/reference	1.01341	1
52DAP/reference	0.95897	0.435
57DAP/reference	1.04739	0.831

Experiment: tomato nor mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.97651	0.623
17DAP/reference	1.08083	0.415
27DAP/reference	1.10545	0.131
39DAP/reference	1.18085	0.066
41DAP/reference	1.03736	0.878
42DAP/reference	0.86601	0.15
43DAP/reference	1.20515	0.161
47DAP/reference	0.97593	0.459
52DAP/reference	1.06966	0.208
57DAP/reference	1.07929	0.26

Experiment: tomato hp1 mutant fruit development

hybridization	ratio	FDR (corrected p value)
7DAP/reference	0.84443	0.034
17DAP/reference	1.07977	0.685
27DAP/reference	0.85959	0.27
39DAP/reference	0.86386	0.199
41DAP/reference	0.94576	0.371
42DAP/reference	1.09839	0.658
43DAP/reference	0.95354	0.432
47DAP/reference	0.9876	0.593
52DAP/reference	1.02917	0.99
57DAP/reference	0.95994	0.359

Experiment: Wild type pepper fruit development

hybridization	ratio	FDR (corrected p value)
20DAP/14DAP	1.18034	0.966
26DAP/20DAP	1.17613	0.464
34DAP/26DAP	1.19099	0.114
51DAP/34DAP	1.30216	0.068
52DAP/51DAP	1.07254	0.404
53DAP/52DAP	0.93601	0.426
55DAP/53DAP	0.83173	0.08
57DAP/55DAP	0.95463	0.795
62DAP/57DAP	0.99521	0.994
68DAP/62DAP	0.894	0.464
68DAP/14DAP	0.85956	1

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

hybridization	ratio	FDR (corrected p value)
Tomato Breaker/Pepper Breaker	0.68035	0.02

Experiment: Solanaceae fruit comparison

hybridization	ratio	FDR (corrected p value)
Green Pepper/Ripe Pepper	0.83113	0.286
Mature Green Tomato/Ripe Tomato	1.00477	0.835
Immature Eggplant/Mature Eggplant	0.89906	0.493
Ripe Pepper/Ripe Tomato	1.58434	1
Mature Eggplant/Ripe Tomato	0.54813

Experiment: IL carotenoid

hybridization	ratio	FDR (corrected p value)
11-1/M82	0.91262	0.907
1-1-2/M82	1.12679
12-2/M82	0.84282
12-4/M82	1.12745	0.694
1-3/M82	0.723	0.501
2-1-1/M82	0.88054
2-1/M82	N/A	N/A
2-6/M82	1.11182	0.425
3-2/M82	0.96347	1
4-1-1/M82	1.08149	1
4-1/M82	0.89256	0.715
4-3-2/M82	1.01601	1
4-3/M82	0.76529	0.72
5-3/M82	0.89164	1
6-2/M82	N/A	N/A
6-3/M82	N/A	N/A
7-1/M82	1.11639
7-2/M82	1.0493	0.385
9-3-2/M82	0.81967	0.355

Experiment: Tomato introgression line transcript analysis

hybridization	ratio	FDR (corrected p value)
IL4-4/WTpooled	0.89938	1
IL2-6/WTpooled	1.53657	0.441
IL7-5/WTpooled	0.88697	0.483
IL7-3/WTpooled	0.81486	1
IL12-4/WTpooled	1.23224	0.891
IL1-4/WTpooled	1.18145	1
WT/WTpooled	1.1164	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	0.88261	0.975

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

hybridization	ratio	FDR (corrected p value)
DC3000/delat hrp 0h	0.95179	1
DC3000/delta hrp 6h	1.00626	0.95
DC3000/delta hrp 12h	1.09611	1
DC3000/delta hrp 24h	1.14389	0.383

Experiment: DC3000 effector mutants

hybridization	ratio	FDR (corrected p value)
DC3000 delta A/DC3000 delta AB	0.82246	0.024
DC3000 delta B/DC3000 delta AB	0.74992	0.037

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

hybridization	ratio	FDR (corrected p value)
Exp 12h	0.92186	1
Exp 36h	1.11881	1
Exp 60h	1.10711	1

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

hybridization	ratio	FDR (corrected p value)
self-self	0.98078	1
Var 0h	0.70802	0.933
Var 12h I row2-row1	0.90539	0.705
Var 12h NI row2-row1	1.0026	1
Var 36h I row2-row1	0.92965	1
Var 36h NI row2-row1	0.97529	0.791
Var 60h I row2-row1	0.98614	1
Var 60h NI row2-row1	0.86375	0.818
Time course 0hI-0hNI	0.99683	1
Time course 12hI-12hNI	1.02369	0.811
Time course 36hI-36hNI	1.09683	0.089
Time course 60hI-60hNI	0.54606	0.007

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)	1.19379	0.347
transgenic ySAMdc/azygous control (breaker)	0.77115	0.49
transgenic ySAMdc/azygous control (red)	0.88971	1

Experiment: Tomato root culture and Al treatment

hybridization	ratio	FDR (corrected p value)
Al-treated/control	1.03634	0.334

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

hybridization	ratio	FDR (corrected p value)
salt-treated/no salt	1.02559	1

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

hybridization	ratio	FDR (corrected p value)
Manapal/WT (mature green)	1.03497	1
Manapal/WT (break)	1.25177	0.381
Manapal/WT (red)	N/A	N/A