FF:10071-101I8

Name:	"duodenum, fetal, donor1"
Species:	Human (Homo sapiens)
Library ID:	CNhs12997
Sample type:	tissues
Genomic View:	UCSC
CAGEd-oPOSSUM:	link

Additional information

Sample information strain NA tissue duodenum dev stage 36 weeks fetus sex male age NA cell type CELL MIXTURE - tissue sample cell line NA company Biochain collaboration FANTOM5 OSC CORE (contact: Al Forrest) External link for information [{{{sample_info_link}}} {{{sample_info_link}}}] RNA information lot number A706076 catalog number Cat:RtHFN: Small Intestine: Duodenum sample type total RNA extraction protocol (Details) OP-RNA-extraction-totalRNA-TRIzol-isopropanol-v1.0

CAGE Accession numbers
Method Sample accession id CAGE  SAMD00005706 Library accession numbers Library id Method Exp. accession id Run accession id CNhs12997 CAGE DRX008645 DRR009517 CAGE DRX008646 DRR009518 Accession ID Hg19 Library id BAM CTSS CNhs12997 DRZ000942 DRZ002327 DRZ000943 DRZ002328 Accession ID Hg38 Library id BAM CTSS CNhs12997

Download raw sequence, BAM & CTSS
Hg19 BAM CTSS [{{{hg19bam}}} download] [{{{hg19ctss}}} donwload] Hg38 BAM CTSS [{{{hg38bam}}} download] [{{{hg38ctss}}} 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>dataNo results for this sample

No results for this sample

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: "CNhs11781This sample isn't target for the analysis
library id: CNhs12997This sample isn't target for the analysis

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: "CNhs11781This sample isn't target for the analysis
library id: CNhs12997

Novel motif	Logo	P-value
1	1	0.0486
10	10	0.081
100	100	0.436
101	101	0.944
102	102	0.911
103	103	0.141
104	104	0.115
105	105	0.0772
106	106	0.0276
107	107	0.0926
108	108	0.953
109	109	5.8364e-4
11	11	0.0217
110	110	0.13
111	111	0.233
112	112	0.28
113	113	0.463
114	114	0.0483
115	115	0.55
116	116	0.376
117	117	0.0182
118	118	0.238
119	119	0.185
12	12	0.572
120	120	0.248
121	121	0.468
122	122	0.794
123	123	0.418
124	124	0.229
125	125	0.359
126	126	0.0141
127	127	0.209
128	128	0.162
129	129	0.433
13	13	0.00364
130	130	0.0736
131	131	0.762
132	132	0.744
133	133	0.268
134	134	0.698
135	135	0.83
136	136	0.00654
137	137	0.504
138	138	0.791
139	139	0.089
14	14	0.583
140	140	0.431
141	141	0.431
142	142	0.972
143	143	0.0166
144	144	0.902
145	145	0.219
146	146	0.464
147	147	0.962
148	148	0.0348
149	149	0.141
15	15	0.0928
150	150	0.234
151	151	0.445
152	152	0.0362
153	153	0.991
154	154	0.542
155	155	0.684
156	156	0.336
157	157	0.402
158	158	0.787
159	159	0.115
16	16	0.0475
160	160	0.274
161	161	0.24
162	162	0.53
163	163	0.495
164	164	0.061
165	165	0.23
166	166	0.736
167	167	0.599
168	168	0.0753
169	169	0.00899
17	17	0.0717
18	18	0.262
19	19	0.134
2	2	0.605
20	20	0.34
21	21	0.151
22	22	0.103
23	23	0.182
24	24	0.0457
25	25	0.477
26	26	0.0105
27	27	0.555
28	28	0.611
29	29	0.0523
3	3	0.0406
30	30	0.801
31	31	0.65
32	32	0.0584
33	33	0.147
34	34	0.533
35	35	0.648
36	36	0.128
37	37	0.0148
38	38	0.24
39	39	0.236
4	4	0.995
40	40	0.0298
41	41	0.219
42	42	0.178
43	43	0.109
44	44	0.198
45	45	0.6
46	46	0.222
47	47	0.0598
48	48	0.0615
49	49	0.144
5	5	0.266
50	50	0.333
51	51	0.415
52	52	0.35
53	53	0.821
54	54	0.326
55	55	0.729
56	56	0.436
57	57	0.463
58	58	0.211
59	59	0.0464
6	6	0.997
60	60	0.0421
61	61	0.04
62	62	0.159
63	63	0.14
64	64	0.416
65	65	0.212
66	66	0.353
67	67	0.468
68	68	0.257
69	69	0.536
7	7	0.0563
70	70	0.0292
71	71	0.02
72	72	0.177
73	73	0.0107
74	74	0.733
75	75	0.0401
76	76	0.468
77	77	0.102
78	78	0.00489
79	79	0.489
8	8	0.108
80	80	0.148
81	81	0.644
82	82	0.429
83	83	0.00226
84	84	0.941
85	85	0.0676
86	86	0.244
87	87	0.00102
88	88	0.749
89	89	0.255
9	9	0.315
90	90	0.199
91	91	0.912
92	92	0.282
93	93	0.824
94	94	0.128
95	95	0.00489
96	96	0.308
97	97	0.775
98	98	0.234
99	99	0.696

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: "CNhs11781
library id: CNhs12997

FANTOM5 (FF) ontology

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Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0010071 human temporal lobe - fetal 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)
0000955 (brain)
0001871 (temporal lobe)
0000956 (cerebral cortex)
0000479 (tissue)
0004121 (ectoderm-derived structure)
0000064 (organ part)
0010314 (structure with developmental contribution from neural crest)
0011216 (organ system subdivision)
0000062 (organ)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000481 (multi-tissue structure)
0000073 (regional part of nervous system)
0000477 (anatomical cluster)
0003528 (brain grey matter)
0002791 (regional part of telencephalon)
0000467 (anatomical system)
0002619 (regional part of cerebral cortex)
0001062 (anatomical entity)
0000480 (anatomical group)
0002616 (regional part of brain)
0002780 (regional part of forebrain)
0002020 (gray matter)
0010317 (germ layer / neural crest derived structure)
0001017 (central nervous system)
0001016 (nervous system)
0001869 (cerebral hemisphere)
0001893 (telencephalon)
0001890 (forebrain)
0000203 (pallium)
0001950 (neocortex)

FF: FANTOM5
0000102 (sample by type)
0000210 (human sample)
0000101 (sample by species)
0000001 (sample)
0000999 (fetal tissue sample)
0000004 (tissue sample)
0010071 (human temporal lobe - fetal 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
NA