FF:3560-170A1

Name:	macrophage, bone marrow derived, pool1
Species:	Mouse (Mus musculus)
Library ID:	{{{library_id}}}
Sample type:	{{{sample_category}}}
Genomic View:	UCSC
CAGEd-oPOSSUM:	link

Additional information

Sample information strain BALB/c tissue bone marrow dev stage UNDEFINED_DEV_STAGE sex male age NA cell type macrophage cell line UNDEFINED_CELL_LINE company NA collaboration Frank Brombacher (University of Cape Town, South Africa) External link for information [{{{sample_info_link}}} {{{sample_info_link}}}] RNA information lot number NA catalog number NA sample type total RNA extraction protocol (Details) NA

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

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

CNhs11457

0	0
1	0
10	0
100	0
1000	0
1001	-0.0631
1002	-0.116
1003	-0.123
1004	0
1005	0
1006	-0.0364
1007	-0.142
1008	0
1009	-0.2
101	-0.0739
1010	0
1011	-0.177
1012	0
1013	-0.0294
1014	-0.0874
1015	-0.303
1016	-0.465
1017	0
1018	0
1019	0
102	0
1020	0.604
1021	0
1022	-0.141
1023	0.399
1024	-0.14
1025	-0.0611
1026	0
1027	0
1028	0
1029	-0.148
103	-0.0887
1030	0
1031	-0.832
1032	-0.288
1033	-0.0665
1034	0
1035	0
1036	0.0565
1037	0
1038	0.00805
1039	-0.107
104	0
1040	-0.536
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 no result for this sample

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

---

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: CNhs11457

Jaspar motif	Logo	P-value
MA0002.2	MA0002.2	6.07125e-5
MA0003.1	MA0003.1	0.498
MA0004.1	MA0004.1	0.239
MA0006.1	MA0006.1	0.517
MA0007.1	MA0007.1	0.322
MA0009.1	MA0009.1	0.191
MA0014.1	MA0014.1	0.878
MA0017.1	MA0017.1	0.142
MA0018.2	MA0018.2	0.0377
MA0019.1	MA0019.1	0.807
MA0024.1	MA0024.1	0.0146
MA0025.1	MA0025.1	0.721
MA0027.1	MA0027.1	0.583
MA0028.1	MA0028.1	0.14
MA0029.1	MA0029.1	0.834
MA0030.1	MA0030.1	0.285
MA0031.1	MA0031.1	0.459
MA0035.2	MA0035.2	0.276
MA0038.1	MA0038.1	0.00315
MA0039.2	MA0039.2	0.694
MA0040.1	MA0040.1	0.701
MA0041.1	MA0041.1	0.0732
MA0042.1	MA0042.1	0.488
MA0043.1	MA0043.1	0.0582
MA0046.1	MA0046.1	1.48625e-8
MA0047.2	MA0047.2	0.342
MA0048.1	MA0048.1	0.728
MA0050.1	MA0050.1	1.20175e-17
MA0051.1	MA0051.1	1.31145e-12
MA0052.1	MA0052.1	0.00135
MA0055.1	MA0055.1	0.972
MA0057.1	MA0057.1	0.841
MA0058.1	MA0058.1	0.096
MA0059.1	MA0059.1	0.101
MA0060.1	MA0060.1	2.39358e-15
MA0061.1	MA0061.1	0.00789
MA0062.2	MA0062.2	3.3426e-4
MA0065.2	MA0065.2	0.047
MA0066.1	MA0066.1	0.0245
MA0067.1	MA0067.1	0.466
MA0068.1	MA0068.1	0.418
MA0069.1	MA0069.1	0.807
MA0070.1	MA0070.1	0.0958
MA0071.1	MA0071.1	0.255
MA0072.1	MA0072.1	0.343
MA0073.1	MA0073.1	0.907
MA0074.1	MA0074.1	0.131
MA0076.1	MA0076.1	0.288
MA0077.1	MA0077.1	0.137
MA0078.1	MA0078.1	0.835
MA0079.2	MA0079.2	0.157
MA0080.2	MA0080.2	3.11114e-12
MA0081.1	MA0081.1	0.00324
MA0083.1	MA0083.1	0.00405
MA0084.1	MA0084.1	0.256
MA0087.1	MA0087.1	0.966
MA0088.1	MA0088.1	0.127
MA0090.1	MA0090.1	0.0701
MA0091.1	MA0091.1	0.229
MA0092.1	MA0092.1	0.66
MA0093.1	MA0093.1	0.237
MA0099.2	MA0099.2	0.0076
MA0100.1	MA0100.1	0.475
MA0101.1	MA0101.1	0.0152
MA0102.2	MA0102.2	0.192
MA0103.1	MA0103.1	0.83
MA0104.2	MA0104.2	0.803
MA0105.1	MA0105.1	1.23552e-4
MA0106.1	MA0106.1	0.348
MA0107.1	MA0107.1	0.0197
MA0108.2	MA0108.2	1.34588e-9
MA0111.1	MA0111.1	0.412
MA0112.2	MA0112.2	8.82154e-5
MA0113.1	MA0113.1	0.409
MA0114.1	MA0114.1	0.354
MA0115.1	MA0115.1	0.983
MA0116.1	MA0116.1	0.00357
MA0117.1	MA0117.1	0.758
MA0119.1	MA0119.1	0.247
MA0122.1	MA0122.1	0.374
MA0124.1	MA0124.1	0.434
MA0125.1	MA0125.1	0.121
MA0131.1	MA0131.1	0.462
MA0135.1	MA0135.1	0.0043
MA0136.1	MA0136.1	4.61506e-14
MA0137.2	MA0137.2	0.443
MA0138.2	MA0138.2	0.979
MA0139.1	MA0139.1	0.373
MA0140.1	MA0140.1	0.6
MA0141.1	MA0141.1	0.0559
MA0142.1	MA0142.1	0.663
MA0143.1	MA0143.1	0.179
MA0144.1	MA0144.1	0.491
MA0145.1	MA0145.1	0.183
MA0146.1	MA0146.1	0.0215
MA0147.1	MA0147.1	0.845
MA0148.1	MA0148.1	0.565
MA0149.1	MA0149.1	0.148
MA0150.1	MA0150.1	0.0389
MA0152.1	MA0152.1	0.986
MA0153.1	MA0153.1	1.36817e-5
MA0154.1	MA0154.1	0.00812
MA0155.1	MA0155.1	0.959
MA0156.1	MA0156.1	4.75709e-8
MA0157.1	MA0157.1	0.623
MA0159.1	MA0159.1	7.80757e-4
MA0160.1	MA0160.1	0.255
MA0162.1	MA0162.1	0.3
MA0163.1	MA0163.1	1.07252e-5
MA0164.1	MA0164.1	0.55
MA0258.1	MA0258.1	0.00461
MA0259.1	MA0259.1	0.941

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: CNhs11457

Novel motif	Logo	P-value
1	1	0.0434
10	10	0.0174
100	100	0.955
101	101	0.866
102	102	0.854
103	103	0.0312
104	104	0.859
105	105	0.722
106	106	0.13
107	107	0.671
108	108	0.91
109	109	0.0443
11	11	0.0755
110	110	0.114
111	111	0.00336
112	112	0.0108
113	113	0.602
114	114	0.00568
115	115	0.687
116	116	0.476
117	117	4.88335e-4
118	118	0.0996
119	119	0.147
12	12	0.505
120	120	0.173
121	121	0.0758
122	122	0.561
123	123	0.824
124	124	0.699
125	125	0.415
126	126	0.296
127	127	0.252
128	128	0.207
129	129	0.119
13	13	0.0145
130	130	0.702
131	131	0.736
132	132	0.955
133	133	0.817
134	134	0.533
135	135	0.911
136	136	0.913
137	137	0.288
138	138	0.871
139	139	0.0871
14	14	0.594
140	140	0.0226
141	141	0.174
142	142	0.863
143	143	0.103
144	144	0.861
145	145	0.197
146	146	0.641
147	147	0.742
148	148	0.0456
149	149	0.038
15	15	0.0436
150	150	0.206
151	151	0.259
152	152	0.468
153	153	0.953
154	154	0.88
155	155	0.492
156	156	0.555
157	157	0.674
158	158	0.194
159	159	1
160	160	0.268
161	161	0.289
162	162	0.748
163	163	0.695
164	164	0.0492
165	165	0.0284
166	166	0.876
167	167	0.307
168	168	0.832
169	169	0.00485
17	17	0.22
18	18	0.132
19	19	0.148
2	2	0.715
20	20	0.118
21	21	0.393
22	22	0.219
23	23	0.625
24	24	0.192
25	25	0.456
26	26	0.00367
27	27	0.845
28	28	0.375
29	29	0.0726
3	3	0.00989
30	30	0.527
31	31	0.659
32	32	0.567
33	33	0.251
34	34	0.799
35	35	0.177
36	36	0.0192
37	37	0.0229
38	38	0.208
39	39	0.667
4	4	0.478
40	40	0.181
41	41	0.384
42	42	0.182
43	43	0.0363
44	44	0.196
45	45	0.742
46	46	0.0386
47	47	0.159
48	48	0.232
49	49	0.054
5	5	0.106
50	50	0.867
51	51	0.739
52	52	0.995
53	53	0.46
54	54	0.684
55	55	0.996
56	56	0.324
57	57	0.344
58	58	0.336
59	59	0.128
6	6	0.612
60	60	0.189
61	61	0.157
62	62	0.108
63	63	0.258
64	64	0.452
65	65	0.117
66	66	0.477
67	67	0.0867
68	68	0.0166
69	69	0.495
7	7	0.13
70	70	0.00369
71	71	0.0284
72	72	0.13
73	73	0.0355
74	74	0.862
75	75	0.00957
76	76	0.0604
77	77	0.383
78	78	0.122
79	79	0.496
8	8	0.0582
80	80	0.846
81	81	0.27
82	82	0.257
83	83	0.764
84	84	0.799
85	85	0.209
86	86	0.185
87	87	0.513
88	88	0.587
89	89	0.0862
9	9	0.507
90	90	0.0318
91	91	0.592
92	92	0.0823
93	93	0.119
94	94	0.345
95	95	0.11
96	96	0.734
97	97	0.789
98	98	0.159
99	99	0.97

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: CNhs11457

FANTOM5 (FF) ontology

---

Direct parent terms

is_a relathionship
FF:0000103 mouse sample
FF:0200021 macrophage, bone marrow-derived 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

FF: FANTOM5
NA

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