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Description:
Author: ijones
Session Name: miao_data_7_21
Genome Assembly: hg19
Creation Date: 2017-07-21
Views: 12
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12 |
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Description: This session provides an example Personal Genome SNP format (pgSnp: http://genome.ucsc.edu/FAQ/FAQformat.html#format10) custom track to help show an individual SNP. A user emailed about the ramifications of a "chr12:612,2713G>A" change in the human hg19 assembly. By turning "chr12:612,2713G>A" into the pgSNP format (chr12 6122712 6122713 G/A 2 0,0 0,0) it can be viewed in the Browser. With pgSnp the first three columns indicate position (0-based start) and the fourth column indicates the alleles (either a G or a A with G/A) and the fifth sixth and seventh columns help share frequency information if known: for example if you had three alleles and no known frequency information you would put 3 0,0,0 0,0,0). Once the custom track is loaded (already loaded in this session) you can go to the top "Tools" menu and select the "Variant Annotation Integrator" and extract information from various gene tracks about the consequence of this change. By doing this you will find there is an introduced stop codon for the VWF gene in this position.
See this Mailing List Question for more: https://groups.google.com/a/soe.ucsc.edu/d/msg/genome/hhBxD1KrAEU/etlMwJKiAQAJ
Author: brianlee
Session Name: hg19.pgSnpExample
Genome Assembly: hg19
Creation Date: 2017-07-19
Views: 13
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13 |
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Description:
Author: jwjiao
Session Name: H2AZ-ChIP-E13-Cortex
Genome Assembly: mm10
Creation Date: 2017-07-13
Views: 25
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25 |
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Description: This session is a response to question for research on Myc binding sites on the IDH1 gene promoter, with a desire to analyze the conservation of Myc binding sites between human and mouse.
In the session Transcription Factor ChIP-seq (161 factors) from ENCODE track is displayed and three MYC binding spots represented. This clustered transcription factor binding track can be sorted to display only certain factors like MYC. Below the MYC binding spots (wgEncodeRegTfbsClusteredV3 track) the conservation data from 100 assembly alignments are displayed (cons100way track), with the specific data from mouse selected. Further below that the Chain/Net data (placentalChainNet track) specific for mouse are also displayed. To see this question on our Mailing List click this link: https://groups.google.com/a/soe.ucsc.edu/d/msg/genome/94u1jx2bk6c/py3OD90WAQAJ
Author: brianlee
Session Name: hg19.mycBinding2
Genome Assembly: hg19
Creation Date: 2017-07-13
Views: 15
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15 |
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Description:
Author: EvansLab
Session Name: Eiji-ATACseq2
Genome Assembly: hg19
Creation Date: 2017-07-10
Views: 17
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17 |
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Description:
Author: phageghost
Session Name: glasslab_microglia_hg38
Genome Assembly: hg38
Creation Date: 2017-06-19
Views: 21
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21 |
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Description:
Author: phageghost
Session Name: glasslab_microglia_mm10
Genome Assembly: mm10
Creation Date: 2017-06-19
Views: 18
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18 |
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Description:
Author: fengyq
Session Name: mm9_HDAC3_ChIP
Genome Assembly: mm9
Creation Date: 2017-06-07
Views: 32
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32 |
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Description:
Author: ezra abramms
Session Name: nebulin bam site two
Genome Assembly: mm10
Creation Date: 2017-06-05
Views: 17
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17 |
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Description:
Author: peijinlim
Session Name: mm9 Nrf2 ChIPseq Mrp2
Genome Assembly: mm9
Creation Date: 2017-06-01
Views: 114
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1496304000 |
114 |
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Description:
Author: ifollon
Session Name: hg19_sangre2
Genome Assembly: hg19
Creation Date: 2017-05-30
Views: 111
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111 |
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Description:
Author: jwrows2014
Session Name: EPAS1 search 5272017
Genome Assembly: hg38
Creation Date: 2017-05-27
Views: 31
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31 |
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Description: This session uses a new format called type=longTabix, here is a mailing list describing this type: https://groups.google.com/a/soe.ucsc.edu/d/msg/genome/kE2pIZUvfnA/jfopk7pFAQAJ
This new type uses a custom track that points to a .gz file, and where that is located there is also a .gz.tbi file that provides the index. The tab-separated .gz file has contents like the following: chr19 44116910 44119168 chr21:47876840-47878656,2 31515 .
The .tbi file is built using the tabix software from: http://samtools.sourceforge.net/tabix.shtml
Author: brianlee
Session Name: hg19.other_regions
Genome Assembly: hg19
Creation Date: 2017-05-25
Views: 35
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35 |
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Description: This session displays a visual representation of the output for a script which finds the nearest closest genes/transcripts as compared to a reference point, as described on this wiki page: http://genomewiki.ucsc.edu/index.php/Finding_nearby_genes
Author: cath
Session Name: MLQ19469
Genome Assembly: hg19
Creation Date: 2017-05-24
Views: 119
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119 |
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Description: This session uses the new Multi-Region paste coordinates function. Multi-region can slice the genome into exons, genes, halpotype, or custom regions. Previously custom regions needed to be defined by a file hosted on a server. Now you can paste in BED3 coordinates directly on the multi-region page.
This session used the Gene Sorter tool (hgNear) to filter create a list of genes related to SIRT1 expression using GTEx data. Those gene names were then fed into the Table Browser to extract BED3 gene coordinates for the related knownCanonical transcripts. These BED3 regions were pasted into the multi-region "Enter custom regions as BED, or a URL to them:" box with the "Highlight alternating regions in multi-view" also checked, so that it displays genes across the hg38 genome with GTEx gene expression similar to SIRT1.
Author: brianlee
Session Name: hg38.SIRT1.relatedExpression
Genome Assembly: hg38
Creation Date: 2017-05-23
Views: 119
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119 |
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Description:
Author: nbosch
Session Name: CRIM1
Genome Assembly: hg19
Creation Date: 2017-05-15
Views: 46
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46 |
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Description: The various AMY1 transcripts in this session overlap in the UCSC RefSeq track because of how we align the RefSeq transcripts to the human genome. Until recently, to build the RefSeq track, we took the RefSeq transcripts and aligned them to the reference genome using BLAT. This method of aligning the transcripts could cause an overlapping issue where sequences are similar. Now, we have two RefSeq tracks; the NCBI RefSeq track and the UCSC RefSeq track. Note in the NCBI RefSeq track the mutlple AMY1 transcripts do not overlap. Here is a blog post that explains the differences between the NCBI RefSeq track and the UCSC RefSeq track in more detail: http://genome.ucsc.edu/blog/the-new-ncbi-refseq-tracks-and-you/
Author: brianlee
Session Name: hg38.refSeq.UCSC
Genome Assembly: hg38
Creation Date: 2017-05-12
Views: 54
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54 |
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Description:
Author: DearDanielxd
Session Name: mm10
Genome Assembly: mm10
Creation Date: 2017-04-25
Views: 46
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1493107200 |
46 |
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Description:
Author: yayinano
Session Name: hg38
Genome Assembly: hg38
Creation Date: 2017-04-21
Views: 47
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1492761600 |
47 |
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Description:
Author: Mouro_81
Session Name: B6J vs 129S1 SNPs at Lrrfip2/Mlh1
Genome Assembly: mm10
Creation Date: 2017-05-15
Views: 118
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1494835200 |
118 |
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Description:
Author: sayloren
Session Name: hg19-chr12-probes
Genome Assembly: hg19
Creation Date: 2017-04-07
Views: 143
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1491552000 |
143 |
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Description: Genomic contact sites of a episomally maintained vectors in mixed populations; transcription profiles of untransfected cells vs stably transfected cells
Author: clauhag
Session Name: ContactSites_mixedpopulations
Genome Assembly: hg19
Creation Date: 2016-12-18
Views: 200
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1482048000 |
200 |
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Description: This session uses new format called type=longTabix, here is an example custom track:
track type=longTabix name=longRange description="This data is using longTabix" bigDataUrl=http://hgwdev.cse.ucsc.edu/~braney/longRange/Esc_40kb_hindIII_rep1.over10.gz
Here is a mailing list describing this type: https://groups.google.com/a/soe.ucsc.edu/d/msg/genome/kE2pIZUvfnA/jfopk7pFAQAJ
This new type uses a custom track that points to a .gz file, and where that is located there is also a .gz.tbi file that provides the index. The tab-separated .gz file has contents like the following (corresponding to the session area, and note that many of the example coordinates are about 40,000 bp apart: 14358129 14398129):
chr21 14358129 14398129 chr21:14678129-14718129,10.2666969602672 7864858 +
The .tbi file is built using the tabix software from: http://samtools.sourceforge.net/tabix.shtml
Author: brianlee
Session Name: hg19.longTabix
Genome Assembly: hg19
Creation Date: 2017-05-24
Views: 39
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39 |
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Description:
Author: liyq
Session Name: mm10_2016
Genome Assembly: mm10
Creation Date: 2017-03-18
Views: 60
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60 |
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Description: The 2bit file, hg38.analysisSet.2bit, has N-masked pseudo-autosomal regions and N-masked repeat regions. You can visualize where the pseudo-autosomal N-masking differs from the Gap track and compare the regions to the Assembly and GRC Incident tracks.
Credit goes to Chris Lee for the creation of this session.
Link to the original mailing list question:
https://groups.google.com/a/soe.ucsc.edu/d/msg/genome/4jQErhiUPp4/Y-AHJjwpBAAJ
Author: PublicSessions
Session Name: N-masked regions on the Y chromosome for hg38
Genome Assembly: hg38
Creation Date: 2017-03-14
Views: 161
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161 |
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Description:
Author: gartnerj928
Session Name: Devi_methyl_IP_tracks
Genome Assembly: mm10
Creation Date: 2017-03-13
Views: 147
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147 |
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Description:
Author: xulab
Session Name: tps_P0_ptm_H3K9me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 62
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1489132800 |
62 |
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Description:
Author: xulab
Session Name: tps_P0_ptm_H3K9ac
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 61
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1489132800 |
61 |
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Description:
Author: xulab
Session Name: tps_P0_ptm_H3K4me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 61
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1489132800 |
61 |
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Description:
Author: xulab
Session Name: tps_P0_ptm_H3K4me2
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 61
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1489132800 |
61 |
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Description:
Author: xulab
Session Name: tps_P0_ptm_H3K4me1
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 60
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1489132800 |
60 |
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Description:
Author: xulab
Session Name: tps_P0_ptm_H3K36me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 55
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1489132800 |
55 |
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Description:
Author: xulab
Session Name: tps_P0_ptm_H3K27me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 62
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1489132800 |
62 |
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Description:
Author: xulab
Session Name: tps_P0_ptm_H3K27ac
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 71
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1489132800 |
71 |
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Description:
Author: xulab
Session Name: tps_E16_ptm_H3K9me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 59
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1489132800 |
59 |
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Description:
Author: xulab
Session Name: tps_E16_ptm_H3K9ac
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 58
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1489132800 |
58 |
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Description:
Author: xulab
Session Name: tps_E16_ptm_H3K4me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 62
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1489132800 |
62 |
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Description:
Author: xulab
Session Name: tps_E16_ptm_H3K4me2
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 58
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1489132800 |
58 |
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Description:
Author: xulab
Session Name: tps_E16_ptm_H3K4me1
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 57
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1489132800 |
57 |
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Description:
Author: xulab
Session Name: tps_E16_ptm_H3K36me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 58
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1489132800 |
58 |
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Description:
Author: xulab
Session Name: tps_E16_ptm_H3K27me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 76
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1489132800 |
76 |
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Description:
Author: xulab
Session Name: tps_E16_ptm_H3K27ac
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 59
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1489132800 |
59 |
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Description:
Author: xulab
Session Name: tps_E15_ptm_H3K9me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 58
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1489132800 |
58 |
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Description:
Author: xulab
Session Name: tps_E15_ptm_H3K9ac
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 57
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1489132800 |
57 |
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Description:
Author: xulab
Session Name: tps_E15_ptm_H3K4me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 54
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1489132800 |
54 |
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Description:
Author: xulab
Session Name: tps_E15_ptm_H3K4me2
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 56
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1489132800 |
56 |
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Description:
Author: xulab
Session Name: tps_E15_ptm_H3K4me1
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 60
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1489132800 |
60 |
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Description:
Author: xulab
Session Name: tps_E15_ptm_H3K36me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 59
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1489132800 |
59 |
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Description:
Author: xulab
Session Name: tps_E15_ptm_H3K27me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 62
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1489132800 |
62 |
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Description:
Author: xulab
Session Name: tps_E15_ptm_H3K27ac
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 57
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1489132800 |
57 |
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Description:
Author: xulab
Session Name: tps_E14_ptm_H3K9me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 54
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1489132800 |
54 |
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Description:
Author: xulab
Session Name: tps_E14_ptm_H3K9ac
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 64
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1489132800 |
64 |
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Description:
Author: xulab
Session Name: tps_E14_ptm_H3K4me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 66
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1489132800 |
66 |
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Description:
Author: xulab
Session Name: tps_E14_ptm_H3K4me2
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 59
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1489132800 |
59 |
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Description:
Author: xulab
Session Name: tps_E14_ptm_H3K4me1
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 58
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1489132800 |
58 |
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Description:
Author: xulab
Session Name: tps_E14_ptm_H3K36me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 64
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1489132800 |
64 |
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Description:
Author: xulab
Session Name: tps_E14_ptm_H3K27me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 57
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1489132800 |
57 |
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Description:
Author: xulab
Session Name: tps_E14_ptm_H3K27ac
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 59
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1489132800 |
59 |
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Description:
Author: xulab
Session Name: tps_E14_ptm_CTCF
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 57
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1489132800 |
57 |
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Description:
Author: xulab
Session Name: tps_ALL_ptm_H3K9me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 62
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1489132800 |
62 |
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Description:
Author: xulab
Session Name: tps_ALL_ptm_H3K9ac
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 58
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1489132800 |
58 |
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Description:
Author: xulab
Session Name: tps_ALL_ptm_H3K4me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 62
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1489132800 |
62 |
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Description:
Author: xulab
Session Name: tps_ALL_ptm_H3K4me2
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 60
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1489132800 |
60 |
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Description:
Author: xulab
Session Name: tps_ALL_ptm_H3K4me1
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 61
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1489132800 |
61 |
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Description:
Author: xulab
Session Name: tps_ALL_ptm_H3K36me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 55
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1489132800 |
55 |
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Description:
Author: xulab
Session Name: tps_ALL_ptm_H3K27me3
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 61
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1489132800 |
61 |
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Description:
Author: xulab
Session Name: tps_ALL_ptm_H3K27ac
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 102
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1489132800 |
102 |
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Description:
Author: xulab
Session Name: tps_ALL_ptm_CTCF
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 95
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1489132800 |
95 |
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Description:
Author: xulab
Session Name: tps_P0_ptm_ALL
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 67
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1489132800 |
67 |
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Description:
Author: xulab
Session Name: tps_E16_ptm_ALL
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 67
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1489132800 |
67 |
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Description:
Author: xulab
Session Name: tps_E15_ptm_ALL
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 68
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1489132800 |
68 |
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Description:
Author: xulab
Session Name: tps_E14_ptm_ALL
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 61
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1489132800 |
61 |
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Description:
Author: xulab
Session Name: tps_ALL_ptm_ALL
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 158
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1489132800 |
158 |
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Description:
Author: chmalee
Session Name: hg38notableChrYFeatures
Genome Assembly: hg38
Creation Date: 2017-03-06
Views: 152
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1488787200 |
152 |
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Description:
Author: rtmag4
Session Name: HCT116_ATAC_SEQ_TBLAB
Genome Assembly: hg38
Creation Date: 2017-03-03
Views: 155
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1488528000 |
155 |
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Description:
Author: xulab
Session Name: tps_P0_ptm_CTCF
Genome Assembly: mm10
Creation Date: 2017-03-10
Views: 65
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1489132800 |
65 |
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Description:
Author: alexaabdelaziz
Session Name: colored_clusters_Alexa_AA
Genome Assembly: hg19
Creation Date: 2017-02-24
Views: 169
|
1487923200 |
169 |
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Description:
Author: adriennelovett
Session Name: hg19
Genome Assembly: hg19
Creation Date: 2017-02-24
Views: 73
|
1487923200 |
73 |
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Description:
Author: Francesco_Ferrari
Session Name: AMLiPSC_H3K27Ac_ChIPseq_final_H3K27Ac
Genome Assembly: hg19
Creation Date: 2017-02-17
Views: 87
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1487318400 |
87 |
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Description:
Author: jberus
Session Name: Bio2010-JB
Genome Assembly: hg18
Creation Date: 2017-02-16
Views: 68
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1487232000 |
68 |
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Description:
Author: SB
Session Name: hg38_ALK E20 Cas9
Genome Assembly: hg38
Creation Date: 2017-02-15
Views: 67
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1487145600 |
67 |
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Description:
Author: Redonc
Session Name: SIRT1
Genome Assembly: hg38
Creation Date: 2017-02-15
Views: 80
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1487145600 |
80 |
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Description: We have recently released a file type called "longTabix" which supports inter & intra-chromosomal interactions by drawing an "arc" among paired regions in the UCSC Genome Browser. Note the first track at the top of the display, you can click on any of the "arcs" or interaction connections to see details such as ID and score.
Credit goes to Cath Tyner for the creation of this session.
Link to the original question:
https://groups.google.com/a/soe.ucsc.edu/d/msg/genome/kE2pIZUvfnA/jfopk7pFAQAJ
Author: PublicSessions
Session Name: Viewing inter- & intra-chromosomal interactions
Genome Assembly: hg19
Creation Date: 2017-02-13
Views: 88
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1486972800 |
88 |
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Description:
Author: Francesco_Ferrari
Session Name: AMLiPSC_H3K27Ac_ChIPseq_CORRECTED
Genome Assembly: hg19
Creation Date: 2017-02-10
Views: 86
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1486713600 |
86 |
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Description:
Author: ARiccio
Session Name: Angela_Nap1l1_mm9
Genome Assembly: mm9
Creation Date: 2017-02-10
Views: 124
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1486713600 |
124 |
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Description:
Author: ShiyiYin
Session Name: mega data with coordinations
Genome Assembly: hg19
Creation Date: 2017-02-08
Views: 175
|
1486540800 |
175 |
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Description:
Author: Francesco_Ferrari
Session Name: AMLiPSC_H3K27Ac_ChIPseq_CORRECTED_autoscaled
Genome Assembly: hg19
Creation Date: 2017-02-13
Views: 89
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1486972800 |
89 |
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Description:
Author: Francesco_Ferrari
Session Name: AMLiPSC_H3K27Ac_ChIPseq_days_5_20_35_40
Genome Assembly: hg19
Creation Date: 2017-02-01
Views: 102
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1485936000 |
102 |
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Description:
Author: ShiyiYin
Session Name: intron6 ehf pcr
Genome Assembly: hg19
Creation Date: 2017-01-27
Views: 77
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1485504000 |
77 |
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Description:
Author: xrdong10
Session Name: hg19_fdek
Genome Assembly: hg19
Creation Date: 2017-01-24
Views: 93
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1485244800 |
93 |
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Description:
Author: rikrdo89
Session Name: rna-seq cardiac
Genome Assembly: mm9
Creation Date: 2017-01-24
Views: 93
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1485244800 |
93 |
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Description:
Author: Francesco_Ferrari
Session Name: AMLiPSC_H3K27Ac_ChIPseq
Genome Assembly: hg19
Creation Date: 2017-01-23
Views: 96
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1485158400 |
96 |
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Description:
Author: ryansamuel13
Session Name: TAS2R28 Gene
Genome Assembly: hg19
Creation Date: 2017-01-23
Views: 76
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76 |
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Description: Mapped branchpoints stratified by motif class.
Full BP data tables and more information here:
http://fairbrother.biomed.brown.edu/data/Lariat2016/
Author: allisontaggart
Session Name: hg19_BPs
Genome Assembly: hg19
Creation Date: 2017-01-18
Views: 196
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1484726400 |
196 |
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Description:
Author: yog77
Session Name: hg19_ClinicalHomology
Genome Assembly: hg19
Creation Date: 2017-01-17
Views: 184
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Description:
Author: Shockwing
Session Name: South, Spring17, Uba1 example
Genome Assembly: mm9
Creation Date: 2017-01-16
Views: 79
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79 |
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Description:
Author: ryansamuel13
Session Name: Samuel, Spring17, Uba1 example
Genome Assembly: mm9
Creation Date: 2017-01-16
Views: 77
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77 |
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Description:
Author: keitermd
Session Name: Spring17_Correct MOUSE TEST - MDK
Genome Assembly: mm9
Creation Date: 2017-01-09
Views: 76
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76 |
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Description:
Author: khan2sa
Session Name: Spring17 Mouse test (SK)
Genome Assembly: mm9
Creation Date: 2017-01-09
Views: 80
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80 |
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Description:
Author: ryansamuel13
Session Name: Spring17 Worm test (RMS)
Genome Assembly: ce11
Creation Date: 2017-01-09
Views: 81
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81 |
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Description:
Author: keitermd
Session Name: Spring17 MOUSE TEST - MDK
Genome Assembly: mm10
Creation Date: 2017-01-09
Views: 79
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79 |
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Description:
Author: lesevimx
Session Name: Spring17 Mouse test (ML)
Genome Assembly: mm9
Creation Date: 2017-01-09
Views: 80
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80 |
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Description:
Author: idror
Session Name: hg19
Genome Assembly: hg19
Creation Date: 2017-01-03
Views: 165
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165 |
 |
Description:
Author: yuelab
Session Name: mm9_min
Genome Assembly: mm9
Creation Date: 2017-01-16
Views: 86
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86 |
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Description: Genomic contact sites of a episomally maintained vectors in single-cell derived populations
Author: clauhag
Session Name: ContactSites_clones
Genome Assembly: hg19
Creation Date: 2016-12-18
Views: 182
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182 |
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Description:
Author: jkearns94
Session Name: Fall 16 481 Final JK
Genome Assembly: mm9
Creation Date: 2016-12-12
Views: 176
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176 |
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Description:
Author: nightfury
Session Name: mm9-fam60a-de
Genome Assembly: mm9
Creation Date: 2016-12-11
Views: 178
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178 |
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Description:
Author: zhang4jx
Session Name: Fall 16 481 final JZ
Genome Assembly: mm9
Creation Date: 2016-12-10
Views: 181
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Description: Since the reference genome assembly is a series of clone sequences from multiple individuals, and all individuals contain rare alleles, some of these rare alleles are included in reference assemblies. In this case, NM_001103170 (TGc), "c" mismatches the reference assemblies "A" because the reference sequence contains a substitution at this location. Please note that this example is on hg18, many (but not all) of these cases have been addressed in newer assemblies. AADACL3, in particular, does not have this substitution in GRCh38/hg38.
Credit goes to Christopher Villarreal for creation of this session.
Link to original question:
https://groups.google.com/a/soe.ucsc.edu/d/msg/genome/6TG1Pze9rUI/TLsKg7bNAwAJ
Author: PublicSessions
Session Name: hg18.AADACL3_mRNA_discrepancy_vs_reference
Genome Assembly: hg18
Creation Date: 2016-12-09
Views: 111
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111 |
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Description:
Author: headricn
Session Name: Fall16 481 final CH
Genome Assembly: mm9
Creation Date: 2016-12-11
Views: 177
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177 |
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Description:
Author: labrozam
Session Name: CGEMS Mouse AL test
Genome Assembly: mm9
Creation Date: 2016-11-29
Views: 93
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93 |
Screenshot not available
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Description: lncRNA identified from chicken preadipocytes during differentiation
Author: Tao Zhang
Session Name: chicken lncRNA
Genome Assembly: hub_30425_galGal4
Creation Date: 2016-11-28
Views: 228
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228 |
Screenshot not available
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Description:
Author: Tao Zhang
Session Name: chicken transcriptome
Genome Assembly: hub_30425_galGal4
Creation Date: 2016-11-29
Views: 241
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241 |
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Description:
Author: labrozam
Session Name: CGEMS Worm AL test
Genome Assembly: ce11
Creation Date: 2016-11-20
Views: 90
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1479628800 |
90 |
Screenshot not available
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Description:
Author: Roza Berhanu
Session Name: hg19-ATAC-with-predicted-enhancers
Genome Assembly: hg19
Creation Date: 2017-03-08
Views: 148
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1488960000 |
148 |
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Description:
Author: maria pia miano
Session Name: hg19s
Genome Assembly: hg19
Creation Date: 2016-11-16
Views: 185
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185 |
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Description:
Author: labrozam
Session Name: CGEMS Yeast AL
Genome Assembly: sacCer3
Creation Date: 2016-11-05
Views: 98
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1478332800 |
98 |
Screenshot not available
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Description:
Author: Courtney Stout
Session Name: AMD hg38 APOE SNP (CS)
Genome Assembly: hg38
Creation Date: 2016-11-04
Views: 181
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1478246400 |
181 |
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Description:
Author: Courtney Stout
Session Name: hg38 AMD CNN2 SNP (CS)
Genome Assembly: hg38
Creation Date: 2016-11-04
Views: 182
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182 |
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Description:
Author: Courtney Stout
Session Name: hg38 AMD APOE SNP(CS)
Genome Assembly: hg38
Creation Date: 2016-11-04
Views: 188
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1478246400 |
188 |
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Description:
Author: delphine.rolando10
Session Name: hg19_HI-LNCs_UCSCsession
Genome Assembly: hg19
Creation Date: 2016-11-01
Views: 203
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203 |
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Description:
Author: caojun
Session Name: Amr-20161031
Genome Assembly: mm9
Creation Date: 2016-10-31
Views: 194
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1477900800 |
194 |
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Description:
Author: Courtney Stout
Session Name: hg38 AMD SNPs
Genome Assembly: hg38
Creation Date: 2016-10-27
Views: 184
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184 |
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Description:
Author: peijinlim
Session Name: mm9 nrf2chipseq tracks
Genome Assembly: mm9
Creation Date: 2016-10-19
Views: 201
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201 |
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Description:
Author: rmaus
Session Name: nha_PE
Genome Assembly: mm8
Creation Date: 2016-10-18
Views: 186
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186 |
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Description:
Author: chubukovp
Session Name: hg19_SMC_upload
Genome Assembly: hg19
Creation Date: 2016-10-14
Views: 218
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218 |
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Description:
Author: Sega666
Session Name: hg19
Genome Assembly: hg19
Creation Date: 2016-10-19
Views: 106
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106 |
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Description:
Author: cath
Session Name: v339publicSessionTest
Genome Assembly: hg38
Creation Date: 2016-10-04
Views: 104
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104 |
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Description: Tracks for Genotype Independant Test (GIT), methylation Quantitative Trait Loci and Allele-Specific Methylation best -log(q-value) result across nTC, adipose tissue and whole blood tissues.
Author: warrenac
Session Name: GIT-mQTL-ASM
Genome Assembly: hg19
Creation Date: 2016-10-04
Views: 204
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204 |
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Description:
Author: Robin
Session Name: hg19
Genome Assembly: hg19
Creation Date: 2016-10-04
Views: 196
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196 |
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Description:
Author: ccornwel
Session Name: cfac
Genome Assembly: canFam3
Creation Date: 2016-09-26
Views: 108
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108 |
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Description:
Author: ddunican
Session Name: MBD3 WT v KO medip-seq ion_torrent mm9
Genome Assembly: mm9
Creation Date: 2016-09-26
Views: 165
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165 |
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Description:
Author: Sega666
Session Name: 02.11
Genome Assembly: hg19
Creation Date: 2016-11-02
Views: 103
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103 |
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Description:
Author: zxtzhangqian
Session Name: 3a-tet2
Genome Assembly: mm9
Creation Date: 2016-09-14
Views: 117
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117 |
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Description:
Author: sergi.villatoro
Session Name: Pangaea Biotech
Genome Assembly: hg19
Creation Date: 2016-09-14
Views: 206
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206 |
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Description:
Author: cmhct7
Session Name: Mouse Quad Data
Genome Assembly: mm10
Creation Date: 2016-09-12
Views: 209
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1473667200 |
209 |
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Description:
Author: vivekgopalanmedgenome
Session Name: hg19_panel_design_JRK
Genome Assembly: hg19
Creation Date: 2016-09-11
Views: 221
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221 |
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Description:
Author: sushivision
Session Name: TKNK31-090116
Genome Assembly: mm9
Creation Date: 2016-09-02
Views: 119
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1472803200 |
119 |
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Description:
Author: lijunyao@usc.edu
Session Name: C2H2_type_1
Genome Assembly: hg19
Creation Date: 2016-09-01
Views: 130
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130 |
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Description: GTEx Allele Specific Expression hub from the Lappalainen Lab at the New York Genome Center. This session shows a region along chromosome 17 of high skin-specific allelic imbalance in a large number of Keratin genes.
Author: chmalee
Session Name: hg19KeratinAse
Genome Assembly: hg19
Creation Date: 2016-08-30
Views: 877
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877 |
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Description: DECSTEP Predictions for H3K4me2 from T cell development by Zhang et al., 2012
Author: pfiziev
Session Name: t_cell_development.H3K4me2 DECSTEP
Genome Assembly: mm9
Creation Date: 2016-08-26
Views: 177
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177 |
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Description:
Author: ps
Session Name: hg19.newTargets
Genome Assembly: hg19
Creation Date: 2016-08-26
Views: 203
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Description: We sequenced the hermaphroditic freshwater snail, Biomphalaria glabrata (strain BB02), the host for the medically important trematode parasite, Schistosoma mansoni, using 1X coverage from plasmids and 0.1X BAC end sequencing on the ABI3730xl and 10X coverage sequenced on the Roche 454 Sequencer (including 2 paired end read runs) was initially assembled with Newbler. The Newbler assembly was screened for contamination then merged with a Soap assembly of Illumina reads followed by use of an in-house program for collapsing of redundant heterozygous contigs. Next, we applied our program, GapCloser, which closes gaps in the assembly by making iterative joins using Illumina reads. Finally we removed contigs less than 200 bases and incorporated reads into the assembly that had been assembled in a prior version of the Newbler assembly but were not assembled in this round. The resulting assembly, going by the name of assembly version 4.3, is 898.9Mb bases with an N50 contig length of 6.9kb and N50 scaffold length of 42kb. For creation of the linkage group AGP files, we identified all scaffolds that were uniquely placed on a single linkage group. Because of low marker density, only 145Mb was localized to specific linkage groups and scaffolds could not be ordered and oriented within linkage groups. Therefore, the scaffolds were simply placed in the order suggested by the linkage mapping on *_random for each linkage group.
Credits:
B. glabrata BB02 samples - Omar dos Santos Carvalho, Centro de Pesquisas Rene Rachou-Fiocruz (sample location: Barreiro, Brazil)
BAC library - Coen M. Adema et al. (2006)
Sequencing and Assembly - The Genome Institute, Washington University School of Medicine
Linkage map
- Jacob Tennessen and Michael Blouin, Oregon State University White Paper
- Matty Knight et al (2003) Others -
- Fred Lewis Biomedical Research Institute of the American Foundation of Biomedical Research
- Eric Loker University of New Mexico Biology
- Nithya Raghavan Biomedical Research Institute of the American Foundation of Biomedical Research
Author: lijing
Session Name: hub_107761_bioGla0
Genome Assembly: hub_107761_bioGla0
Creation Date: 2016-08-24
Views: 181
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181 |
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Description:
Author: mperelis
Session Name: Stein_PDX1
Genome Assembly: mm10
Creation Date: 2016-09-30
Views: 190
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190 |
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Description:
Author: sappingtonae
Session Name: test
Genome Assembly: hg38
Creation Date: 2016-08-15
Views: 208
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Description: This is an assembly hub for the AgamP4 assembly of Anopheles gambiae PEST strain. It includes the assembly; the coding genes and pseudogenes from vectorbase version 4.3; predicted stop codon readthrough regions; PhyloCSF tracks showing evolutionary protein-coding potential; splice-prediction tracks using the maximum-entropy splice-prediction algorithm; and novel coding and pseudogene predictions using PhyloCSF, excluding regions already annotated in vectorbase version 4.3.
Author: iljungr
Session Name: AgamP4
Genome Assembly: hub_102577_AgamP4
Creation Date: 2016-08-09
Views: 162
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162 |
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Description:
Author: jdf228
Session Name: PGC-1 alpha ChIP-seq C2C12
Genome Assembly: mm9
Creation Date: 2017-03-20
Views: 59
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59 |
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Description:
Author: cook2wj
Session Name: Alpha Syn Chip Data
Genome Assembly: hg18
Creation Date: 2016-07-22
Views: 218
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Description: Track set summarizing genomic data (vcf files based on genome resequencing as well as RNASeq data) for population samples of wild caught individuals of subspecies and species of the house mouse (genus Mus). Includes also several general analysis tracks. Details are described in Harr, B. et al. Genomic resources for wild populations of the house mouse, Mus musculus and its close relative Mus spretus. Sci. Data 3:160075 doi: 10.1038/sdata.2016.75 (2016).
Author: dtautz
Session Name: wildmouse
Genome Assembly: mm10
Creation Date: 2016-07-26
Views: 287
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287 |
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Description:
Author: matthew.law
Session Name: MTAP_melanoma
Genome Assembly: hg19
Creation Date: 2016-07-25
Views: 208
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208 |
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Description:
Author: lesevimx
Session Name: Alpha Syn Chip Data
Genome Assembly: hg18
Creation Date: 2016-07-21
Views: 238
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238 |
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Description:
Author: Toma Matveeva
Session Name: CGEMS #1
Genome Assembly: sacCer3
Creation Date: 2016-07-21
Views: 227
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227 |
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Description:
Author: jpate2
Session Name: CGEMS Yeast TRJP primers test
Genome Assembly: sacCer3
Creation Date: 2016-07-21
Views: 197
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197 |
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Description:
Author: hadani81
Session Name: CGEMS Mouse HD/MC/JD Test
Genome Assembly: mm9
Creation Date: 2016-07-21
Views: 127
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127 |
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Description:
Author: Nithesh
Session Name: CGEMS Yeast NPC test
Genome Assembly: sacCer3
Creation Date: 2016-07-21
Views: 133
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133 |
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Description:
Author: monroejd
Session Name: CGEMS Yeast JM
Genome Assembly: sacCer3
Creation Date: 2016-07-21
Views: 117
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1469088000 |
117 |
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Description:
Author: jpate2
Session Name: CGEMS Yeast TRJP test
Genome Assembly: sacCer3
Creation Date: 2016-07-21
Views: 117
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1469088000 |
117 |
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Description:
Author: kapsakcj
Session Name: CGEMS Mouse CK test
Genome Assembly: mm9
Creation Date: 2016-07-21
Views: 115
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1469088000 |
115 |
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Description:
Author: Shockwing
Session Name: CGEMS Yeast (Shockwing) Test
Genome Assembly: sacCer3
Creation Date: 2016-07-21
Views: 106
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1469088000 |
106 |
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Description:
Author: herrsp
Session Name: CGEMS Yeast SPH test
Genome Assembly: sacCer3
Creation Date: 2016-07-21
Views: 124
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124 |
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Description:
Author: blossta
Session Name: CGEMS Worm TB test
Genome Assembly: ce11
Creation Date: 2016-07-21
Views: 127
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1469088000 |
127 |
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Description:
Author: shufengliu
Session Name: CGEMS Human SL test
Genome Assembly: hg38
Creation Date: 2016-07-21
Views: 119
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1469088000 |
119 |
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Description:
Author: klj002
Session Name: CGEMS Worm (KLJ SFB) test
Genome Assembly: ce11
Creation Date: 2016-07-21
Views: 118
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118 |
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Description:
Author: MaxHenderson
Session Name: CGEMS Yeast MEH test
Genome Assembly: sacCer3
Creation Date: 2016-07-21
Views: 105
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105 |
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Description:
Author: cook2wj
Session Name: CGEMS Human WCSK test
Genome Assembly: hg38
Creation Date: 2016-07-21
Views: 117
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117 |
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Description:
Author: bravonja
Session Name: CGEMS Human JBSP test
Genome Assembly: hg38
Creation Date: 2016-07-21
Views: 122
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122 |
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Description:
Author: stjacqrm
Session Name: CGEMS Yeast RMSJ test
Genome Assembly: sacCer3
Creation Date: 2016-07-21
Views: 119
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119 |
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Description:
Author: s.jurg96
Session Name: CGEMS worm SJ EA CG test
Genome Assembly: ce11
Creation Date: 2016-07-21
Views: 116
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116 |
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Description:
Author: youngbh
Session Name: CGEMS Mouse BHY Custom Tracks Chr6
Genome Assembly: mm9
Creation Date: 2016-07-21
Views: 189
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189 |
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Description:
Author: youngbh
Session Name: CGEMS Mouse BHY test
Genome Assembly: mm9
Creation Date: 2016-07-21
Views: 112
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112 |
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Description:
Author: youngbh
Session Name: CGEMS Human BHY test
Genome Assembly: hg38
Creation Date: 2016-07-21
Views: 110
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110 |
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Description:
Author: youngbh
Session Name: CGEMS Worm BHY test
Genome Assembly: ce11
Creation Date: 2016-07-21
Views: 119
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1469088000 |
119 |
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Description:
Author: youngbh
Session Name: CGEMS Yeast BHY test
Genome Assembly: sacCer3
Creation Date: 2016-07-20
Views: 117
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1469001600 |
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Description:
Author: Courtney Stout
Session Name: CGems Yeast AH test
Genome Assembly: sacCer3
Creation Date: 2016-07-19
Views: 108
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108 |
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Description:
Author: Robin
Session Name: CHPv3 versus Sanger/CHPv2
Genome Assembly: hg19
Creation Date: 2016-07-11
Views: 194
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Description: This session displays three groups of information. On the one hand, in track gwRCGTG, it shows the location of all RCGTG motifs across the genome (both strands included). On the other hand, it displays experimentally determined HIF1A (tracks with suffix "1A") and EPAS1 (tracks with suffix "2A") binding sites as described in references: J. Biol. Chem. (2006), 284, 16767–16775 ("Mole_JBC_1A"); Proc. Natl. Acad. Sci. U. S. A.(2009), 106, 4260–4265 ("Xia_PNAS_1A"); Genome Biol.(2009), 10, R113. ("Xia_GenBiol_1A"); Blood (2011), 117, 23, e207-17 ("Scho_Blood_1A" and "Scho_Blood_2A"); PLoS One(2012), 7, e45708("Villar_PLoS_1A"); Nat. Genet.(2012), 44, 420–425 ("Scho_NatGen_2A"). This track also contains HRE described in single gene studies ("SingleGene" track). Finally it also displays the regions sequenced in Roche et al Nucleic Acids Res. 2016 Nov 2;44(19):9315-9330. Epub 2016 Sep 12 (PMID:27625398).
Author: Lab252
Session Name: Roche_et_al_NAR_44_19_9315_2016
Genome Assembly: hg19
Creation Date: 2016-07-04
Views: 214
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Description: This session displays H3K27ac enrichment for 10 different human brain regions. The data is described in Vermunt et. al (2014) Cell reports. PMID: 25373911, GEO: GSE40465
Author: MWVermunt
Session Name: H3K27ac Human Brain, Vermunt et al (2014) Cell Reports
Genome Assembly: hg19
Creation Date: 2016-07-13
Views: 206
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206 |
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Description:
Author: mattievaz8
Session Name: 062816_Mattie
Genome Assembly: mm10
Creation Date: 2016-06-28
Views: 190
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1467100800 |
190 |
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Description:
Author: sergi.villatoro
Session Name: Pangaea Biotech GenneReader
Genome Assembly: hg19
Creation Date: 2016-09-16
Views: 192
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192 |
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Description:
Author: lijin
Session Name: session7 97L 3 chip
Genome Assembly: hg19
Creation Date: 2016-06-20
Views: 174
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Description: This sessions shows some of the highlight features. You can have multiple highlights of different colors. But also some searches will bring up highlights, for example the search of a gene GRIA3 shows that specific transcript that was requested highlighted in blue. Also you can go into certain GENCODE tracks and under the "Genes" Select view menu you can highlight items by such things as Transcript Annotation method, seen in this session for all the "manual" annotated genes. Also, if you search by a HGVS term, such as NM_000828.4:c.-2G>A that will leave a highlight, as seen in light orange in this session. Lastly if you go into the "Base Position" Track under Mapping and Sequencing, you can enter a motif like TTT in this example to highlight those sequences in the current view.
Author: brianlee
Session Name: hg38.funwithHighlights
Genome Assembly: hg38
Creation Date: 2017-05-11
Views: 51
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Description: This session demonstrates the GTEx track on the human assembly hg19. The GTEx track shows data from the NIH Genotype-Tissue Expression project and displays expression data for each gene, based on GENCODE gene models, from 51 tissues collected from 570 individual. This session also demonstrates the gene-only mode of the multi-region feature, which removes intergenic regions from the display.
Author: mspeir
Session Name: hg19_gtexAnnouncement
Genome Assembly: hg19
Creation Date: 2016-06-17
Views: 170
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Description: This session is demonstrating the exon-only mode of the multi-region feature. The exon-only mode uses the GENCODE v22 track to slice up the normal display and remove both intronic and intergenic regions from the display. Only those regions covered by exons, both coding and noncoding, are left in the display. For more on the multi-region display see the user guide: http://genome.ucsc.edu/goldenPath/help/multiRegionHelp.html.
Author: mspeir
Session Name: hg38_exonOnlyExample
Genome Assembly: hg38
Creation Date: 2016-06-17
Views: 159
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Description: This session helps illustrate how codon wobble in bases diverges through evolution when the amino acid is the same (note the conservation score graph). You can see that the third base in many codons is less conserved than the first two. This third base is called the "wobble base." For more about wobble bases, see: https://www.nobelprize.org/educational/medicine/dna/a/translation/trna_wobble.html.
Author: mspeir
Session Name: hg19_wobble
Genome Assembly: hg19
Creation Date: 2016-06-17
Views: 355
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Description: This session uses the Short Match Track to display matches of "cagcagcagcagcagcag" repeats in a polyglutamine region (Note Qs) at the 3' end of the gene HTT, Huntingtin, linked to Huntington's disease.
Author: mspeir
Session Name: hg19_CAGrepeat
Genome Assembly: hg19
Creation Date: 2016-06-17
Views: 151
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Description:
Author: cschee
Session Name: A375_Input
Genome Assembly: hg19
Creation Date: 2016-06-15
Views: 148
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148 |
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Description:
Author: cschee
Session Name: A375_K27Ac
Genome Assembly: hg19
Creation Date: 2016-06-15
Views: 190
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190 |
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Description:
Author: cschee
Session Name: RNA_A375
Genome Assembly: hg19
Creation Date: 2016-06-14
Views: 185
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185 |
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Description:
Author: cschee
Session Name: A375_K27me3
Genome Assembly: hg19
Creation Date: 2016-06-14
Views: 206
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Description: Public session showcasing the GTEx gene expression track and GTEx RNA-seq signal hub for the GTEx Resources in the Browser GB blog article. The session shows a genomic region with 5 genes with different patterns of tissue-specific expression.
Author: kate
Session Name: GTEx demo for blog
Genome Assembly: hg19
Creation Date: 2016-06-09
Views: 699
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Description: Session highlights a mouse-specific repeat on chromosome 12. You can see the gap in the 60-way vertebrate alignment surrounding the repeat, which is highlighted in light blue. The repeat is classified as a LINE and is part of the L1 family of repeats. Additionally, on the far right-hand side of the display, you can see the retrotransposed Bf3 gene.
Author: mspeir
Session Name: mm10_MouseSpecificRepeat_plus_RetroposedGene
Genome Assembly: mm10
Creation Date: 2016-05-24
Views: 128
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Description: Session displays the promoter region of DARC on human assembly hg19 including UCSC Genes, dbSNP 146 (Common subset) and the Publications track showing sequences and SNPs text-mined from PubMed Central and Elsevier. Adapted from Figure 1 in Meyer, et al. The UCSC Genome Browser database: extensions and updates 2013. Nucleic Acids Res. 2013 Jan;41(Database issue):D64-9: http://nar.oxfordjournals.org/content/41/D1/D64.long.
Author: mspeir
Session Name: hg19_NAR_2013_Fig1
Genome Assembly: hg19
Creation Date: 2016-05-24
Views: 133
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Description: Session displays the dyskeratosis congenita 1 (DKC1) gene using the exon-only multi-region mode in the human assembly hg38. Alongside the gene structure, tracks displaying dbSNP "flagged" variants, OMIM clinical variants, ENCODE transcription levels from 9 cell lines, a 100-way vertebrate alignment (only a subset of species displayed), and conservation scores calculated using phyloP across this 100-way alignment.
Author: mspeir
Session Name: hg38_DKC1_SNPs_Cons_Transcription
Genome Assembly: hg38
Creation Date: 2016-05-24
Views: 155
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Description: Session displays the promoter region and transcription start of IRF1 on human assembly hg19 showing UCSC Genes, 1000 Genomes Phase 3 Integrated Variant Calls in the haplotype sorting VCF display mode, histone mark H3K27Ac binding in overlays of 7 ENCODE cell lines and PhyloP conservation scores from alignments of 100 vertebrates. Adapted from Figure 2 in Meyer, et al. The UCSC Genome Browser database: extensions and updates 2013. Nucleic Acids Res. 2013 Jan;41(Database issue):D64-9: http://nar.oxfordjournals.org/content/41/D1/D64.long.
Author: mspeir
Session Name: hg19_NAR_2013_Fig2
Genome Assembly: hg19
Creation Date: 2016-05-24
Views: 168
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168 |
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Description:
Author: mirigitik
Session Name: bahcc1
Genome Assembly: mm9
Creation Date: 2016-05-16
Views: 202
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202 |
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Description:
Author: KateLawrensonCSHS
Session Name: OCAC_CIMBA_Oncoarray
Genome Assembly: hg19
Creation Date: 2016-05-03
Views: 428
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428 |
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Description:
Author: Kurotaki
Session Name: mm10 tachibana
Genome Assembly: mm10
Creation Date: 2016-05-12
Views: 266
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266 |
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Description:
Author: David C. Rupert
Session Name: hg19_Pheno2016-7-26
Genome Assembly: hg19
Creation Date: 2016-07-26
Views: 233
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233 |
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Description:
Author: lijin
Session Name: session2 four types
Genome Assembly: hg19
Creation Date: 2016-04-17
Views: 180
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180 |
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Description:
Author: lijin
Session Name: session5 whole genome methy
Genome Assembly: hg19
Creation Date: 2016-04-29
Views: 235
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235 |
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Description:
Author: cschee
Session Name: A375_Input_21092016
Genome Assembly: hg19
Creation Date: 2016-09-21
Views: 235
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235 |
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Description:
Author: lijin
Session Name: session1 Liver 97L exp meth
Genome Assembly: hg19
Creation Date: 2016-04-17
Views: 216
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216 |
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Description:
Author: labrozam
Session Name: mm9
Genome Assembly: mm9
Creation Date: 2016-10-02
Views: 111
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111 |
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Description:
Author: dunlapea
Session Name: Dunlap, BIO480 Uba1 example
Genome Assembly: hg19
Creation Date: 2016-09-04
Views: 109
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109 |
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Description:
Author: nedaronaghi
Session Name: hg19-all_weeks
Genome Assembly: hg19
Creation Date: 2017-03-07
Views: 128
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128 |
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Description:
Author: oshgo
Session Name: 14q32Methyl450-GO8
Genome Assembly: hg19
Creation Date: 2015-10-19
Views: 204
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204 |
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Description:
Author: cath
Session Name: v440hgw0Test
Genome Assembly: hg38
Creation Date: 2016-10-25
Views: 93
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93 |
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Description:
Author: hs523
Session Name: mm10-ZFP57-SentToAnastasia-merged
Genome Assembly: mm10
Creation Date: 2016-01-13
Views: 215
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215 |
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Description:
Author: ferhatay
Session Name: hg19
Genome Assembly: hg19
Creation Date: 2016-08-25
Views: 125
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125 |
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Description:
Author: lijin
Session Name: session4 plus h3k27ac density andpeaks
Genome Assembly: hg19
Creation Date: 2016-04-28
Views: 177
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177 |
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Description:
Author: lijin
Session Name: session3 plus h3k27ac
Genome Assembly: hg19
Creation Date: 2016-04-28
Views: 176
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176 |
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Description:
Author: salima
Session Name: e32_tailseq_5p_3p
Genome Assembly: ce10
Creation Date: 2015-07-03
Views: 209
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209 |
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Description:
Author: isilver1
Session Name: PABPC1_CLIP_Public
Genome Assembly: mm10
Creation Date: 2015-07-01
Views: 385
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385 |
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Description:
Author: cschee
Session Name: RNA_HEMa
Genome Assembly: hg19
Creation Date: 2016-06-14
Views: 154
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154 |
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Description:
Author: keitermd
Session Name: Keiter, Spring 2017, Uba1 example
Genome Assembly: mm9
Creation Date: 2017-01-15
Views: 81
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81 |
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Description:
Author: gcarmich
Session Name: ARGLU1 OE bigWig tracks
Genome Assembly: hg19
Creation Date: 2015-04-21
Views: 185
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185 |
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Description:
Author: ekrobins
Session Name: TSS_CAGE
Genome Assembly: hg19
Creation Date: 2017-05-17
Views: 128
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128 |
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Description:
Author: renkejhsph
Session Name: Ridley Ch4: Fate (HTT cag repeats)
Genome Assembly: hg19
Creation Date: 2015-09-19
Views: 156
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156 |
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Description:
Author: holtonke
Session Name: CGEMS Worm KEH test
Genome Assembly: ce11
Creation Date: 2016-07-21
Views: 162
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162 |
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Description:
Author: Sdietmann
Session Name: mm9_yael
Genome Assembly: mm9
Creation Date: 2012-12-12
Views: 144
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144 |
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Description:
Author: isilver1
Session Name: NAD
Genome Assembly: mm10
Creation Date: 2015-03-09
Views: 217
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217 |
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Description:
Author: cath
Session Name: v338test
Genome Assembly: hg38
Creation Date: 2016-09-13
Views: 115
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115 |
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Description: This session displays a region of the LHX6 gene that highlights a selection of the new tracks added in the previous year for the hg38/GRCh38 human assembly. The tracks shown in this display (from top to bottom) include GENCODE Genes V22, transcription levels assayed across 9 ENCODE cell lines, DNase hypersensitive regions based on data from 95 ENCODE cell lines, genome-wide conservation scores calculated using phastCons, a multiple genome alignment created using Lastz and Multiz, and pathogenic CNVs from the ClinGen database. Adapted from Figure 1 in Speir, et al. The UCSC Genome Browser database: 2016 update. Nucleic Acids Res. 2016 Jan 4;44(D1):D717-25: http://nar.oxfordjournals.org/content/44/D1/D717.full
Author: mspeir
Session Name: hg38_NAR_2016_Fig1
Genome Assembly: hg38
Creation Date: 2015-08-11
Views: 239
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239 |
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Description:
Author: labrozam
Session Name: CGEMS Human AL test
Genome Assembly: hg38
Creation Date: 2016-11-21
Views: 107
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107 |
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Description:
Author: cosmid88
Session Name: SRY-SOX9-ChIP-Chip
Genome Assembly: mm8
Creation Date: 2013-06-29
Views: 412
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412 |
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