FF:1535-43I7

Name:	pancreas, embryo E18
Species:	Mouse (Mus musculus)
Library ID:	{{{library_id}}}
Sample type:	developmental
Genomic View:	UCSC
CAGEd-oPOSSUM:	link

Additional information
Sample information strain C57BL/6J tissue pancreas dev stage 18 days embryo sex mixture age NA cell type CELL MIXTURE - tissue sample cell line NA company NA collaboration FANTOM5 OSC CORE (contact: Al Forrest) External link for information [{{{sample_info_link}}} {{{sample_info_link}}}] RNA information lot number NA catalog number NA sample type NA extraction protocol (Details) NA

CAGE Accession numbers
Method Sample accession id CAGE  DRS008922 Library accession numbers Library id Method Exp. accession id Run accession id {{{library_id}}} {{{accession_numbers}}} Accession ID Mm9 Library id BAM CTSS {{{library_id}}} Accession ID Mm10 Library id BAM CTSS {{{library_id}}}

Download raw sequence, BAM & CTSS
Mm9 BAM CTSS [{{{mm9bam}}} download] [{{{mm9ctss}}} donwload] Mm10 BAM CTSS [{{{mm10bam}}} download] [{{{mm10ctss}}} donwload]

Relative expression to median (log10)

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Transcription factors with enriched expression in this sampleRanked list of transcription factor promoter expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed.

Co-expression clusters with enriched expression in this sampleRanked list of co-expression cluster expression in this sample relative to the median expression in the FANTOM5 collection is shown. Value is log10 transformed. <br>Analyst:NA <br><br>link to dataset.<br>data

CNhs10580

0	0
1	0
10	0
100	0
1000	0.0325
1001	0.0307
1002	0.115
1003	-0.087
1004	0
1005	0
1006	-0.0262
1007	-0.0184
1008	0
1009	0.148
101	0.033
1010	0.348
1011	-0.101
1012	0
1013	0.529
1014	0.261
1015	-0.0194
1016	-0.061
1017	0
1018	0.0567
1019	0
102	0
1020	0
1021	0.116
1022	0.327
1023	0
1024	0.116
1025	0.287
1026	0
1027	0.0554
1028	0
1029	-0.0604
103	0.147
1030	0
1031	0.296
1032	0.1
1033	0.116
1034	0.368
1035	0
1036	-0.0224
1037	0
1038	0.0319
1039	0.0159
104	0
1040	0.0939
1041	0

Repeat families with enriched expression in this sample<b>Summary:</b>Ranked list of repeat family expression in this sample relative tothe median expression in the FANTOM5 collection is shown. Value is log10transformed.<br><b>Analyst:</b>NA<br><br>link to dataset.<br>data

TFBS(DNA)motifs over-represented in proximal region of promoters active in this sample

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JASPAR motifs<b>Summary:</b>Association of JASPAR motif to the promoter expression in thissample. Pearson's correlation between the number of TFBSs estimated byusing the position-weight matrix for each promoter and its expression isexpressed as Z-score by taking the ones based on random position-weightmatrix, and the tail probability of the normal distribution correspondingto the Z-score is taken as the resulting P-value. Lower P-value indicatesmore (non-random) association of the motif to promoter expression<br><b>Analyst:</b> Michiel de Hoon <br><br><br>link to dataset.<br>data

library id: CNhs10580

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	0.388
MA0003.1	MA0003.1	0.319
MA0004.1	MA0004.1	0.0973
MA0006.1	MA0006.1	0.175
MA0007.1	MA0007.1	0.165
MA0009.1	MA0009.1	0.688
MA0014.1	MA0014.1	0.539
MA0017.1	MA0017.1	0.337
MA0018.2	MA0018.2	0.226
MA0019.1	MA0019.1	0.904
MA0024.1	MA0024.1	0.893
MA0025.1	MA0025.1	0.785
MA0027.1	MA0027.1	0.845
MA0028.1	MA0028.1	0.9
MA0029.1	MA0029.1	0.243
MA0030.1	MA0030.1	0.576
MA0031.1	MA0031.1	0.54
MA0035.2	MA0035.2	0.0552
MA0038.1	MA0038.1	0.286
MA0039.2	MA0039.2	0.00365
MA0040.1	MA0040.1	0.773
MA0041.1	MA0041.1	0.243
MA0042.1	MA0042.1	0.69
MA0043.1	MA0043.1	0.597
MA0046.1	MA0046.1	2.80267e-34
MA0047.2	MA0047.2	2.9963e-5
MA0048.1	MA0048.1	0.769
MA0050.1	MA0050.1	0.585
MA0051.1	MA0051.1	0.393
MA0052.1	MA0052.1	0.0104
MA0055.1	MA0055.1	0.271
MA0057.1	MA0057.1	0.663
MA0058.1	MA0058.1	0.146
MA0059.1	MA0059.1	0.0618
MA0060.1	MA0060.1	4.38341e-5
MA0061.1	MA0061.1	0.859
MA0062.2	MA0062.2	0.633
MA0065.2	MA0065.2	0.57
MA0066.1	MA0066.1	0.872
MA0067.1	MA0067.1	0.0865
MA0068.1	MA0068.1	0.443
MA0069.1	MA0069.1	0.476
MA0070.1	MA0070.1	0.304
MA0071.1	MA0071.1	0.151
MA0072.1	MA0072.1	0.532
MA0073.1	MA0073.1	0.697
MA0074.1	MA0074.1	0.0344
MA0076.1	MA0076.1	0.906
MA0077.1	MA0077.1	0.727
MA0078.1	MA0078.1	0.957
MA0079.2	MA0079.2	0.0604
MA0080.2	MA0080.2	0.476
MA0081.1	MA0081.1	0.462
MA0083.1	MA0083.1	0.907
MA0084.1	MA0084.1	0.943
MA0087.1	MA0087.1	0.391
MA0088.1	MA0088.1	0.0718
MA0090.1	MA0090.1	0.0628
MA0091.1	MA0091.1	1.8934e-4
MA0092.1	MA0092.1	0.403
MA0093.1	MA0093.1	0.0964
MA0099.2	MA0099.2	0.0791
MA0100.1	MA0100.1	0.00139
MA0101.1	MA0101.1	0.753
MA0102.2	MA0102.2	0.312
MA0103.1	MA0103.1	7.33688e-6
MA0104.2	MA0104.2	0.41
MA0105.1	MA0105.1	0.655
MA0106.1	MA0106.1	0.865
MA0107.1	MA0107.1	0.375
MA0108.2	MA0108.2	0.359
MA0111.1	MA0111.1	0.287
MA0112.2	MA0112.2	0.427
MA0113.1	MA0113.1	0.616
MA0114.1	MA0114.1	0.156
MA0115.1	MA0115.1	0.345
MA0116.1	MA0116.1	0.487
MA0117.1	MA0117.1	0.828
MA0119.1	MA0119.1	0.225
MA0122.1	MA0122.1	0.494
MA0124.1	MA0124.1	0.875
MA0125.1	MA0125.1	0.737
MA0131.1	MA0131.1	0.503
MA0135.1	MA0135.1	0.0298
MA0136.1	MA0136.1	0.095
MA0137.2	MA0137.2	0.00351
MA0138.2	MA0138.2	0.154
MA0139.1	MA0139.1	0.137
MA0140.1	MA0140.1	0.0817
MA0141.1	MA0141.1	0.844
MA0142.1	MA0142.1	0.224
MA0143.1	MA0143.1	0.351
MA0144.1	MA0144.1	0.021
MA0145.1	MA0145.1	0.027
MA0146.1	MA0146.1	0.209
MA0147.1	MA0147.1	0.198
MA0148.1	MA0148.1	1.68419e-6
MA0149.1	MA0149.1	0.352
MA0150.1	MA0150.1	0.063
MA0152.1	MA0152.1	0.927
MA0153.1	MA0153.1	1.69796e-15
MA0154.1	MA0154.1	0.119
MA0155.1	MA0155.1	0.121
MA0156.1	MA0156.1	0.991
MA0157.1	MA0157.1	0.245
MA0159.1	MA0159.1	0.871
MA0160.1	MA0160.1	0.427
MA0162.1	MA0162.1	0.554
MA0163.1	MA0163.1	0.417
MA0164.1	MA0164.1	0.0197
MA0258.1	MA0258.1	0.919
MA0259.1	MA0259.1	0.199

FANTOM5 phase1 novel unique motifs<b>Summary:</b>Association of the 169 novel and unique motifs discovered in FANTOM5 phase1 in this sample. Among the de-novo motifs discovered by DMF, HOMER,ChIPMunk, and ScanAll, only novel motifs are selected after comparison with known motif sets, and their clustering based on MACRO-APE resulted in169 novel and unique motifs. Their association to the promoter expression is evaluated in the same way to the JASPAR motif above<br><b>Analyst:</b> Michiel de Hoon <br><br><br>link to dataset.<br>data

library id: CNhs10580

Novel motif	Logo	P-value
1	1	0.853
10	10	0.488
100	100	0.775
101	101	0.32
102	102	0.717
103	103	0.854
104	104	0.267
105	105	0.837
106	106	0.427
107	107	0.61
108	108	0.863
109	109	0.0387
11	11	0.772
110	110	0.354
111	111	0.689
112	112	0.882
113	113	0.0689
114	114	0.0529
115	115	0.86
116	116	0.538
117	117	0.893
118	118	0.122
119	119	0.816
12	12	0.167
120	120	0.621
121	121	0.178
122	122	0.475
123	123	0.433
124	124	0.355
125	125	0.134
126	126	0.0679
127	127	0.882
128	128	0.462
129	129	0.846
13	13	0.00689
130	130	0.836
131	131	0.137
132	132	0.865
133	133	0.582
134	134	0.114
135	135	0.506
136	136	0.0125
137	137	0.0929
138	138	0.0181
139	139	0.465
14	14	0.849
140	140	0.497
141	141	0.901
142	142	0.45
143	143	0.903
144	144	0.14
145	145	0.622
146	146	0.316
147	147	0.204
148	148	0.178
149	149	0.356
15	15	0.163
150	150	0.645
151	151	0.322
152	152	0.0149
153	153	0.76
154	154	0.132
155	155	0.978
156	156	0.00241
157	157	0.643
158	158	0.709
159	159	0.789
160	160	0.171
161	161	0.197
162	162	0.574
163	163	0.967
164	164	0.7
165	165	0.811
166	166	0.0726
167	167	0.36
168	168	0.683
169	169	0.144
17	17	0.324
18	18	0.0618
19	19	0.0743
2	2	0.303
20	20	0.735
21	21	0.572
22	22	0.266
23	23	0.935
24	24	0.0486
25	25	0.388
26	26	0.0576
27	27	0.974
28	28	0.129
29	29	0.743
3	3	0.489
30	30	0.287
31	31	0.779
32	32	0.761
33	33	0.225
34	34	0.656
35	35	0.0564
36	36	0.864
37	37	0.262
38	38	0.896
39	39	0.374
4	4	0.237
40	40	0.249
41	41	0.096
42	42	0.825
43	43	0.584
44	44	0.966
45	45	0.462
46	46	0.677
47	47	0.918
48	48	0.979
49	49	0.291
5	5	0.216
50	50	0.239
51	51	0.985
52	52	0.371
53	53	0.391
54	54	0.561
55	55	0.874
56	56	0.406
57	57	0.0616
58	58	0.814
59	59	0.0693
6	6	0.465
60	60	0.249
61	61	0.339
62	62	0.326
63	63	0.411
64	64	0.953
65	65	0.367
66	66	0.0534
67	67	0.85
68	68	0.0473
69	69	0.908
7	7	0.329
70	70	0.156
71	71	0.454
72	72	0.446
73	73	0.0587
74	74	0.802
75	75	0.971
76	76	0.21
77	77	0.0736
78	78	0.73
79	79	0.11
8	8	0.908
80	80	0.171
81	81	0.0716
82	82	0.986
83	83	0.886
84	84	0.0778
85	85	0.826
86	86	0.424
87	87	0.0366
88	88	0.255
89	89	0.71
9	9	0.664
90	90	0.466
91	91	0.968
92	92	0.372
93	93	0.957
94	94	0.0247
95	95	0.301
96	96	0.123
97	97	0.0395
98	98	0.43
99	99	0.304

de novo motifs identified by HOMER in promoters active in this sample<b>Summary:</b>The result of HOMER in this sample is shown.<br><b>Analyst:</b>NA <br> library id: CNhs10580

FANTOM5 (FF) ontology

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Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0011253 mouse pancreas- embryo E18 sample

Ancestor terms (non development)<b>Summary:</b>Connected ontology terms with is_a, part_of or located_in relationship <br><b>Analyst:</b> Hideya Kawaji<br><br>link to source data<br>data

UBERON: Anatomy
0000468 (multi-cellular organism)
0000922 (embryo)
0001264 (pancreas)
0002100 (trunk)
0000479 (tissue)
0000466 (immaterial anatomical entity)
0002075 (viscus)
0000062 (organ)
0000475 (organism subdivision)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0002553 (anatomical cavity)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0002323 (body cavity)
0005177 (trunk region element)
0000464 (anatomical space)
0004458 (body cavity or lining)
0000949 (endocrine system)

FF: FANTOM5
0000102 (sample by type)
0000101 (sample by species)
0000103 (mouse sample)
0000001 (sample)
0000999 (fetal tissue sample)
0000292 (embryonic day sample - mouse)
0000004 (tissue sample)
0000302 (mouse embryonic day 18 sample)
0011253 (mouse pancreas- embryo E18 sample)

Ancestor terms (development)<b>Summary:</b>Connected ontology terms with develops_from, derives_from or preceded_by relationship <br><b>Analyst:</b> Hideya Kawaji <br><br>link to source data<br>data
FF:0000294 (mouse embryonic day 11 sample)

{{{1}}} Accession numbers
Method Sample accession id {{{2}}}  Library accession numbers Library id Method Exp. accession id Run accession id {{{4}}} {{{3}}} Accession ID Library id BAM CTSS {{{4}}} Accession ID Library id BAM CTSS {{{4}}}