FF:10063-101H9

Name:	"temporal lobe, fetal, donor1"
Species:	Human (Homo sapiens)
Library ID:	CNhs12996
Sample type:	tissues
Genomic View:	UCSC
CAGEd-oPOSSUM:	link

Additional information

Sample information strain NA tissue temporal lobe dev stage 22 weeks fetus sex female 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 A702181 catalog number Cat:RtHFN: Brain temporal lobe sample type total RNA extraction protocol (Details) OP-RNA-extraction-totalRNA-TRIzol-isopropanol-v1.0

CAGE Accession numbers
Method Sample accession id CAGE  SAMD00005719 Library accession numbers Library id Method Exp. accession id Run accession id CNhs12996 CAGE DRX008737 DRR009609 CAGE DRX008738 DRR009610 Accession ID Hg19 Library id BAM CTSS CNhs12996 DRZ001034 DRZ002419 DRZ001035 DRZ002420 Accession ID Hg38 Library id BAM CTSS CNhs12996

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: "CNhs11772This sample isn't target for the analysis
library id: CNhs12996This 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: "CNhs11772This sample isn't target for the analysis
library id: CNhs12996

Novel motif	Logo	P-value
1	1	0.25
10	10	0.181
100	100	0.556
101	101	0.769
102	102	0.359
103	103	0.7
104	104	0.624
105	105	0.119
106	106	0.521
107	107	0.0738
108	108	0.333
109	109	0.0774
11	11	0.576
110	110	0.298
111	111	0.43
112	112	0.0648
113	113	0.0118
114	114	0.837
115	115	0.111
116	116	0.368
117	117	0.00875
118	118	0.668
119	119	0.266
12	12	0.365
120	120	0.64
121	121	0.277
122	122	0.173
123	123	0.285
124	124	0.476
125	125	0.744
126	126	0.628
127	127	0.205
128	128	0.136
129	129	0.501
13	13	0.106
130	130	0.162
131	131	0.758
132	132	0.0133
133	133	0.49
134	134	0.974
135	135	0.0981
136	136	0.499
137	137	0.262
138	138	0.853
139	139	0.858
14	14	0.543
140	140	0.921
141	141	0.987
142	142	0.727
143	143	0.16
144	144	0.773
145	145	0.499
146	146	0.647
147	147	0.297
148	148	0.0911
149	149	0.153
15	15	0.191
150	150	0.429
151	151	0.489
152	152	0.636
153	153	0.847
154	154	0.656
155	155	0.539
156	156	0.67
157	157	0.574
158	158	0.836
159	159	0.126
16	16	0.791
160	160	0.62
161	161	0.688
162	162	0.635
163	163	0.388
164	164	0.561
165	165	0.517
166	166	0.264
167	167	0.579
168	168	0.568
169	169	0.801
17	17	0.957
18	18	0.0296
19	19	0.0251
2	2	0.00333
20	20	0.0105
21	21	0.469
22	22	0.716
23	23	0.197
24	24	0.539
25	25	0.592
26	26	0.726
27	27	0.087
28	28	0.573
29	29	0.0383
3	3	0.389
30	30	0.0791
31	31	0.489
32	32	3.21252e-6
33	33	0.362
34	34	0.535
35	35	0.999
36	36	0.0222
37	37	0.0818
38	38	0.715
39	39	0.689
4	4	0.477
40	40	0.0971
41	41	0.0118
42	42	0.259
43	43	0.914
44	44	0.313
45	45	0.684
46	46	0.902
47	47	0.563
48	48	0.633
49	49	0.615
5	5	0.736
50	50	0.982
51	51	0.644
52	52	0.235
53	53	0.854
54	54	0.762
55	55	0.822
56	56	0.784
57	57	0.234
58	58	0.85
59	59	0.158
6	6	0.872
60	60	0.384
61	61	0.246
62	62	0.909
63	63	0.711
64	64	0.915
65	65	0.654
66	66	0.00314
67	67	0.134
68	68	0.471
69	69	0.801
7	7	0.938
70	70	0.495
71	71	0.42
72	72	0.78
73	73	0.0187
74	74	0.21
75	75	0.0129
76	76	0.0166
77	77	0.252
78	78	0.582
79	79	0.166
8	8	0.862
80	80	0.284
81	81	0.501
82	82	0.501
83	83	0.979
84	84	0.742
85	85	0.109
86	86	0.177
87	87	0.00787
88	88	0.747
89	89	0.491
9	9	0.808
90	90	0.0592
91	91	0.0548
92	92	0.189
93	93	0.235
94	94	0.0266
95	95	0.00667
96	96	0.912
97	97	0.433
98	98	0.333
99	99	0.186

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: "CNhs11772
library id: CNhs12996

FANTOM5 (FF) ontology

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Direct parent terms

is_a relathionship
EFO:0002091 biological replicate
FF:0010063 human duodenum - 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)
0002108 (small intestine)
0000160 (intestine)
0000479 (tissue)
0001007 (digestive system)
0004119 (endoderm-derived structure)
0011216 (organ system subdivision)
0000062 (organ)
0000061 (anatomical structure)
0000465 (material anatomical entity)
0000481 (multi-tissue structure)
0004921 (subdivision of digestive tract)
0000477 (anatomical cluster)
0000467 (anatomical system)
0001062 (anatomical entity)
0000480 (anatomical group)
0010317 (germ layer / neural crest derived structure)
0001555 (digestive tract)
0002114 (duodenum)
0005409 (gastrointestinal system)

FF: FANTOM5
0000102 (sample by type)
0000210 (human sample)
0000101 (sample by species)
0000001 (sample)
0000999 (fetal tissue sample)
0000004 (tissue sample)
0010063 (human duodenum - 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