| Source ID |
Type |
Tax ID |
Position |
| hs5 |
VISTA |
10090 |
8:115713572-116315153  |
| Gene | Transcript | Position | Biotype |
|---|
Notice (8): Undefined index: CIL_0008IE_0002 [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($region_arr[$accession["region_elements"]["region_element_id"]]['genes_in_region'] as $gene_key => $gene_el): ?>
$viewFile = '/var/www/c-it-loci/app/View/Region/show.ctp'
$dataForView = array(
'region_arr' => array(
'CIL_0008IE_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000221330' => null,
'ENSG00000259867' => null,
'ENSG00000260237' => null,
'ENSG00000260706' => null,
'ENSG00000260876' => null,
'ENSG00000261082' => 'long intergenic non-protein coding RNA 1228',
'ENSG00000261376' => null,
'ENSG00000261390' => null,
'ENSG00000279378' => null
),
'gene_name_arr' => array(
'ENSG00000221330' => 'AC009159.1',
'ENSG00000259867' => 'RP11-525K10.3',
'ENSG00000260237' => 'RP11-148M9.1',
'ENSG00000260706' => 'RP11-525K10.1',
'ENSG00000260876' => 'RP11-345M22.1',
'ENSG00000261082' => 'LINC01228',
'ENSG00000261376' => 'RP11-525K10.2',
'ENSG00000261390' => 'RP11-345M22.2',
'ENSG00000279378' => 'RP11-70D24.1'
),
'accession_table' => array(
(int) 0 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 1 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 8 => 'Bladder',
(int) 10 => 'Brain',
(int) 14 => 'Breast',
(int) 18 => 'Colon',
(int) 22 => 'Heart',
(int) 25 => 'Kidney',
(int) 29 => 'Liver',
(int) 34 => 'Lung',
(int) 37 => 'Muscle',
(int) 38 => 'Ovary',
(int) 45 => 'Placenta',
(int) 57 => 'Testis'
),
'column_titles' => array(
(int) 0 => 'Region Sub-Accession',
(int) 1 => 'Tax ID',
(int) 2 => 'Position',
(int) 3 => 'Region Length'
),
'geneviewer' => array(
(int) 9606 => array(
'version' => 'GRCh38',
'coord_key' => 'Homo sapiens',
'reference_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.reference',
'gene_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.gene',
'transcript_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.transcript',
'desc' => 'Gene structures from GENCODE 19',
'twoBitURI' => '/static/files/GRCh38.2bit',
'bwgURI' => '/static/files/GRCh38.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
),
(int) 10090 => array(
'version' => 'GRCm38',
'coord_key' => 'Mus musculus',
'reference_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.reference',
'gene_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.gene',
'transcript_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.transcript',
'desc' => 'Gene structures from GENCODE 19',
'twoBitURI' => '/static/files/GRCm38.2bit',
'bwgURI' => '/static/files/GRCm38.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
),
(int) 7955 => array(
'version' => 'Zv9',
'coord_key' => 'Danio rerio',
'reference_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.reference',
'gene_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.gene',
'transcript_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.transcript',
'twoBitURI' => '/static/files/Zv9.2bit',
'bwgURI' => '/static/files/Zv9.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
)
),
'transcript_count' => (int) 22,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000408403' => array(
'start' => '79669655',
'end' => '79669737',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC009159.1-201'
),
'ENST00000563267' => array(
'start' => '80526839',
'end' => '80540953',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-006'
),
'ENST00000564411' => array(
'start' => '80507569',
'end' => '80540867',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-004'
),
'ENST00000565050' => array(
'start' => '80155249',
'end' => '80540947',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-001'
),
'ENST00000568552' => array(
'start' => '80528642',
'end' => '80540877',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-002'
),
'ENST00000568776' => array(
'start' => '80155053',
'end' => '80563135',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-005'
),
'ENST00000568819' => array(
'start' => '80218035',
'end' => '80540870',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-003'
),
'ENST00000565531' => array(
'start' => '80040662',
'end' => '80045745',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-148M9.1-001'
),
'ENST00000563397' => array(
'start' => '80065849',
'end' => '80167577',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-525K10.1-002'
),
'ENST00000567851' => array(
'start' => '80065836',
'end' => '80157655',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-525K10.1-001'
),
'ENST00000561510' => array(
'start' => '79713847',
'end' => '79799090',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-002'
),
'ENST00000563360' => array(
'start' => '79676108',
'end' => '79726429',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-001'
),
'ENST00000567665' => array(
'start' => '79798534',
'end' => '79799090',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-004'
),
'ENST00000568751' => array(
'start' => '79770471',
'end' => '79801343',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-003'
),
'ENST00000569164' => array(
'start' => '79798593',
'end' => '79807922',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-005'
),
'ENST00000567966' => array(
'start' => '79798050',
'end' => '79827150',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC01228-001'
),
'ENST00000566030' => array(
'start' => '80179129',
'end' => '80180682',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-525K10.2-001'
),
'ENST00000562921' => array(
'start' => '79715232',
'end' => '79770563',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.2-002'
),
'ENST00000566729' => array(
'start' => '79750692',
'end' => '79770563',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.2-001'
),
'ENST00000567993' => array(
'start' => '79721312',
'end' => '79770532',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.2-003'
),
'ENST00000568389' => array(
'start' => '79753386',
'end' => '79770301',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.2-004'
),
'ENST00000624606' => array(
'start' => '79675685',
'end' => '79677715',
'transcript_biotype' => 'TEC',
'transcript_name' => 'RP11-70D24.1-001'
)
),
'accession_map' => array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
),
'sci_name_map' => array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
),
'UCSC_links' => array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
),
'expressed_region_arr' => array(
'CIL_0008IE_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0008IE_0001' => array(
'genes_in_region' => array(
'ENSG00000260876' => array(
[maximum depth reached]
),
'ENSG00000261082' => array(
[maximum depth reached]
),
'ENSG00000261376' => array(
[maximum depth reached]
),
'ENSG00000261390' => array(
[maximum depth reached]
),
'ENSG00000279378' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adrenal',
(int) 1 => 'Placenta',
(int) 2 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 4 => 'Brain',
(int) 5 => 'Breast',
(int) 6 => 'Heart',
(int) 7 => 'Kidney',
(int) 8 => 'Liver',
(int) 9 => 'Placenta',
(int) 10 => 'Adrenal',
(int) 11 => 'Brain',
(int) 12 => 'Breast',
(int) 13 => 'Colon',
(int) 14 => 'Ovary',
(int) 15 => 'Placenta',
(int) 16 => 'Placenta',
(int) 17 => 'Lung',
(int) 18 => 'Ovary',
(int) 19 => 'Placenta',
(int) 20 => 'Placenta',
(int) 21 => 'Colon',
(int) 22 => 'Ovary',
(int) 23 => 'Placenta',
(int) 24 => 'Placenta',
(int) 25 => 'Ovary',
(int) 26 => 'Ovary',
(int) 27 => 'Testis',
(int) 28 => 'Adrenal',
(int) 29 => 'Bladder',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Heart',
(int) 34 => 'Kidney',
(int) 35 => 'Liver',
(int) 36 => 'Ovary',
(int) 37 => 'Placenta',
(int) 38 => 'Testis',
(int) 39 => 'Adipose',
(int) 40 => 'Bladder',
(int) 41 => 'Kidney',
(int) 42 => 'Liver',
(int) 43 => 'Lung',
(int) 44 => 'Placenta',
(int) 45 => 'Testis',
(int) 46 => 'Liver',
(int) 47 => 'Placenta',
(int) 48 => 'Adipose',
(int) 49 => 'Adrenal',
(int) 50 => 'Brain',
(int) 51 => 'Breast',
(int) 52 => 'Colon',
(int) 53 => 'Heart',
(int) 54 => 'Kidney',
(int) 55 => 'Liver',
(int) 56 => 'Lung',
(int) 57 => 'Muscle',
(int) 58 => 'Ovary',
(int) 59 => 'Placenta',
(int) 60 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSG00000221330' => null,
'ENSG00000259867' => null,
'ENSG00000260237' => null,
'ENSG00000260706' => null,
'ENSG00000260876' => null,
'ENSG00000261082' => 'long intergenic non-protein coding RNA 1228',
'ENSG00000261376' => null,
'ENSG00000261390' => null,
'ENSG00000279378' => null
)
$gene_name_arr = array(
'ENSG00000221330' => 'AC009159.1',
'ENSG00000259867' => 'RP11-525K10.3',
'ENSG00000260237' => 'RP11-148M9.1',
'ENSG00000260706' => 'RP11-525K10.1',
'ENSG00000260876' => 'RP11-345M22.1',
'ENSG00000261082' => 'LINC01228',
'ENSG00000261376' => 'RP11-525K10.2',
'ENSG00000261390' => 'RP11-345M22.2',
'ENSG00000279378' => 'RP11-70D24.1'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0008IE_0001',
'tax_id' => '9606',
'chromosome' => '16',
'seq_start' => '79636010',
'seq_end' => '80237400',
'region_length' => '601390',
'region_type' => 'VISTA',
'el_id' => 'hs5'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0008IE_0002',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '115713572',
'seq_end' => '116315153',
'region_length' => '601581',
'region_type' => 'VISTA',
'el_id' => 'hs5'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 8 => 'Bladder',
(int) 10 => 'Brain',
(int) 14 => 'Breast',
(int) 18 => 'Colon',
(int) 22 => 'Heart',
(int) 25 => 'Kidney',
(int) 29 => 'Liver',
(int) 34 => 'Lung',
(int) 37 => 'Muscle',
(int) 38 => 'Ovary',
(int) 45 => 'Placenta',
(int) 57 => 'Testis'
)
$column_titles = array(
(int) 0 => 'Region Sub-Accession',
(int) 1 => 'Tax ID',
(int) 2 => 'Position',
(int) 3 => 'Region Length'
)
$geneviewer = array(
(int) 9606 => array(
'version' => 'GRCh38',
'coord_key' => 'Homo sapiens',
'reference_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.reference',
'gene_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.gene',
'transcript_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.transcript',
'desc' => 'Gene structures from GENCODE 19',
'twoBitURI' => '/static/files/GRCh38.2bit',
'bwgURI' => '/static/files/GRCh38.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
),
(int) 10090 => array(
'version' => 'GRCm38',
'coord_key' => 'Mus musculus',
'reference_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.reference',
'gene_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.gene',
'transcript_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.transcript',
'desc' => 'Gene structures from GENCODE 19',
'twoBitURI' => '/static/files/GRCm38.2bit',
'bwgURI' => '/static/files/GRCm38.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
),
(int) 7955 => array(
'version' => 'Zv9',
'coord_key' => 'Danio rerio',
'reference_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.reference',
'gene_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.gene',
'transcript_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.transcript',
'twoBitURI' => '/static/files/Zv9.2bit',
'bwgURI' => '/static/files/Zv9.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
)
)
$transcript_count = (int) 22
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000408403' => array(
'start' => '79669655',
'end' => '79669737',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC009159.1-201'
),
'ENST00000563267' => array(
'start' => '80526839',
'end' => '80540953',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-006'
),
'ENST00000564411' => array(
'start' => '80507569',
'end' => '80540867',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-004'
),
'ENST00000565050' => array(
'start' => '80155249',
'end' => '80540947',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-001'
),
'ENST00000568552' => array(
'start' => '80528642',
'end' => '80540877',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-002'
),
'ENST00000568776' => array(
'start' => '80155053',
'end' => '80563135',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-005'
),
'ENST00000568819' => array(
'start' => '80218035',
'end' => '80540870',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-003'
),
'ENST00000565531' => array(
'start' => '80040662',
'end' => '80045745',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-148M9.1-001'
),
'ENST00000563397' => array(
'start' => '80065849',
'end' => '80167577',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-525K10.1-002'
),
'ENST00000567851' => array(
'start' => '80065836',
'end' => '80157655',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-525K10.1-001'
),
'ENST00000561510' => array(
'start' => '79713847',
'end' => '79799090',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-002'
),
'ENST00000563360' => array(
'start' => '79676108',
'end' => '79726429',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-001'
),
'ENST00000567665' => array(
'start' => '79798534',
'end' => '79799090',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-004'
),
'ENST00000568751' => array(
'start' => '79770471',
'end' => '79801343',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-003'
),
'ENST00000569164' => array(
'start' => '79798593',
'end' => '79807922',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-005'
),
'ENST00000567966' => array(
'start' => '79798050',
'end' => '79827150',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC01228-001'
),
'ENST00000566030' => array(
'start' => '80179129',
'end' => '80180682',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-525K10.2-001'
),
'ENST00000562921' => array(
'start' => '79715232',
'end' => '79770563',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.2-002'
),
'ENST00000566729' => array(
'start' => '79750692',
'end' => '79770563',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.2-001'
),
'ENST00000567993' => array(
'start' => '79721312',
'end' => '79770532',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.2-003'
),
'ENST00000568389' => array(
'start' => '79753386',
'end' => '79770301',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.2-004'
),
'ENST00000624606' => array(
'start' => '79675685',
'end' => '79677715',
'transcript_biotype' => 'TEC',
'transcript_name' => 'RP11-70D24.1-001'
)
)
$accession_map = array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
)
$sci_name_map = array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array(
'CIL_0008IE_0001' => array(
'genes_in_region' => array(
'ENSG00000260876' => array(
[maximum depth reached]
),
'ENSG00000261082' => array(
[maximum depth reached]
),
'ENSG00000261376' => array(
[maximum depth reached]
),
'ENSG00000261390' => array(
[maximum depth reached]
),
'ENSG00000279378' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adrenal',
(int) 1 => 'Placenta',
(int) 2 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 4 => 'Brain',
(int) 5 => 'Breast',
(int) 6 => 'Heart',
(int) 7 => 'Kidney',
(int) 8 => 'Liver',
(int) 9 => 'Placenta',
(int) 10 => 'Adrenal',
(int) 11 => 'Brain',
(int) 12 => 'Breast',
(int) 13 => 'Colon',
(int) 14 => 'Ovary',
(int) 15 => 'Placenta',
(int) 16 => 'Placenta',
(int) 17 => 'Lung',
(int) 18 => 'Ovary',
(int) 19 => 'Placenta',
(int) 20 => 'Placenta',
(int) 21 => 'Colon',
(int) 22 => 'Ovary',
(int) 23 => 'Placenta',
(int) 24 => 'Placenta',
(int) 25 => 'Ovary',
(int) 26 => 'Ovary',
(int) 27 => 'Testis',
(int) 28 => 'Adrenal',
(int) 29 => 'Bladder',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Heart',
(int) 34 => 'Kidney',
(int) 35 => 'Liver',
(int) 36 => 'Ovary',
(int) 37 => 'Placenta',
(int) 38 => 'Testis',
(int) 39 => 'Adipose',
(int) 40 => 'Bladder',
(int) 41 => 'Kidney',
(int) 42 => 'Liver',
(int) 43 => 'Lung',
(int) 44 => 'Placenta',
(int) 45 => 'Testis',
(int) 46 => 'Liver',
(int) 47 => 'Placenta',
(int) 48 => 'Adipose',
(int) 49 => 'Adrenal',
(int) 50 => 'Brain',
(int) 51 => 'Breast',
(int) 52 => 'Colon',
(int) 53 => 'Heart',
(int) 54 => 'Kidney',
(int) 55 => 'Liver',
(int) 56 => 'Lung',
(int) 57 => 'Muscle',
(int) 58 => 'Ovary',
(int) 59 => 'Placenta',
(int) 60 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0008IE_0002',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '115713572',
'seq_end' => '116315153',
'region_length' => '601581',
'region_type' => 'VISTA',
'el_id' => 'hs5'
)
)
$gene_el = array(
'ENST00000624606' => array(
'Adipose' => array(
'average_FPKM' => '0.094',
'stddev_FPKM' => '0.00'
),
'Adrenal' => array(
'average_FPKM' => '0.312',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.209',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.150',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '0.102',
'stddev_FPKM' => '0.00'
),
'Heart' => array(
'average_FPKM' => '0.023',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.109',
'stddev_FPKM' => '0.00'
),
'Liver' => array(
'average_FPKM' => '0.076',
'stddev_FPKM' => '0.04'
),
'Lung' => array(
'average_FPKM' => '0.085',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.005',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.092',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.011',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.384',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSG00000279378'
$is_first = false
$tran_el = array(
'Adipose' => array(
'average_FPKM' => '0.094',
'stddev_FPKM' => '0.00'
),
'Adrenal' => array(
'average_FPKM' => '0.312',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.209',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.150',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '0.102',
'stddev_FPKM' => '0.00'
),
'Heart' => array(
'average_FPKM' => '0.023',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.109',
'stddev_FPKM' => '0.00'
),
'Liver' => array(
'average_FPKM' => '0.076',
'stddev_FPKM' => '0.04'
),
'Lung' => array(
'average_FPKM' => '0.085',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.005',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.092',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.011',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.384',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENST00000624606'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($region_arr[$accession["region_elements"]["region_element_id"]]['genes_in_region'] as $gene_key => $gene_el): ?>
$viewFile = '/var/www/c-it-loci/app/View/Region/show.ctp'
$dataForView = array(
'region_arr' => array(
'CIL_0008IE_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000221330' => null,
'ENSG00000259867' => null,
'ENSG00000260237' => null,
'ENSG00000260706' => null,
'ENSG00000260876' => null,
'ENSG00000261082' => 'long intergenic non-protein coding RNA 1228',
'ENSG00000261376' => null,
'ENSG00000261390' => null,
'ENSG00000279378' => null
),
'gene_name_arr' => array(
'ENSG00000221330' => 'AC009159.1',
'ENSG00000259867' => 'RP11-525K10.3',
'ENSG00000260237' => 'RP11-148M9.1',
'ENSG00000260706' => 'RP11-525K10.1',
'ENSG00000260876' => 'RP11-345M22.1',
'ENSG00000261082' => 'LINC01228',
'ENSG00000261376' => 'RP11-525K10.2',
'ENSG00000261390' => 'RP11-345M22.2',
'ENSG00000279378' => 'RP11-70D24.1'
),
'accession_table' => array(
(int) 0 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 1 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 8 => 'Bladder',
(int) 10 => 'Brain',
(int) 14 => 'Breast',
(int) 18 => 'Colon',
(int) 22 => 'Heart',
(int) 25 => 'Kidney',
(int) 29 => 'Liver',
(int) 34 => 'Lung',
(int) 37 => 'Muscle',
(int) 38 => 'Ovary',
(int) 45 => 'Placenta',
(int) 57 => 'Testis'
),
'column_titles' => array(
(int) 0 => 'Region Sub-Accession',
(int) 1 => 'Tax ID',
(int) 2 => 'Position',
(int) 3 => 'Region Length'
),
'geneviewer' => array(
(int) 9606 => array(
'version' => 'GRCh38',
'coord_key' => 'Homo sapiens',
'reference_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.reference',
'gene_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.gene',
'transcript_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.transcript',
'desc' => 'Gene structures from GENCODE 19',
'twoBitURI' => '/static/files/GRCh38.2bit',
'bwgURI' => '/static/files/GRCh38.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
),
(int) 10090 => array(
'version' => 'GRCm38',
'coord_key' => 'Mus musculus',
'reference_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.reference',
'gene_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.gene',
'transcript_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.transcript',
'desc' => 'Gene structures from GENCODE 19',
'twoBitURI' => '/static/files/GRCm38.2bit',
'bwgURI' => '/static/files/GRCm38.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
),
(int) 7955 => array(
'version' => 'Zv9',
'coord_key' => 'Danio rerio',
'reference_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.reference',
'gene_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.gene',
'transcript_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.transcript',
'twoBitURI' => '/static/files/Zv9.2bit',
'bwgURI' => '/static/files/Zv9.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
)
),
'transcript_count' => (int) 22,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000408403' => array(
'start' => '79669655',
'end' => '79669737',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC009159.1-201'
),
'ENST00000563267' => array(
'start' => '80526839',
'end' => '80540953',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-006'
),
'ENST00000564411' => array(
'start' => '80507569',
'end' => '80540867',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-004'
),
'ENST00000565050' => array(
'start' => '80155249',
'end' => '80540947',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-001'
),
'ENST00000568552' => array(
'start' => '80528642',
'end' => '80540877',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-002'
),
'ENST00000568776' => array(
'start' => '80155053',
'end' => '80563135',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-005'
),
'ENST00000568819' => array(
'start' => '80218035',
'end' => '80540870',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-003'
),
'ENST00000565531' => array(
'start' => '80040662',
'end' => '80045745',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-148M9.1-001'
),
'ENST00000563397' => array(
'start' => '80065849',
'end' => '80167577',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-525K10.1-002'
),
'ENST00000567851' => array(
'start' => '80065836',
'end' => '80157655',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-525K10.1-001'
),
'ENST00000561510' => array(
'start' => '79713847',
'end' => '79799090',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-002'
),
'ENST00000563360' => array(
'start' => '79676108',
'end' => '79726429',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-001'
),
'ENST00000567665' => array(
'start' => '79798534',
'end' => '79799090',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-004'
),
'ENST00000568751' => array(
'start' => '79770471',
'end' => '79801343',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-003'
),
'ENST00000569164' => array(
'start' => '79798593',
'end' => '79807922',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-005'
),
'ENST00000567966' => array(
'start' => '79798050',
'end' => '79827150',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC01228-001'
),
'ENST00000566030' => array(
'start' => '80179129',
'end' => '80180682',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-525K10.2-001'
),
'ENST00000562921' => array(
'start' => '79715232',
'end' => '79770563',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.2-002'
),
'ENST00000566729' => array(
'start' => '79750692',
'end' => '79770563',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.2-001'
),
'ENST00000567993' => array(
'start' => '79721312',
'end' => '79770532',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.2-003'
),
'ENST00000568389' => array(
'start' => '79753386',
'end' => '79770301',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.2-004'
),
'ENST00000624606' => array(
'start' => '79675685',
'end' => '79677715',
'transcript_biotype' => 'TEC',
'transcript_name' => 'RP11-70D24.1-001'
)
),
'accession_map' => array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
),
'sci_name_map' => array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
),
'UCSC_links' => array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
),
'expressed_region_arr' => array(
'CIL_0008IE_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0008IE_0001' => array(
'genes_in_region' => array(
'ENSG00000260876' => array(
[maximum depth reached]
),
'ENSG00000261082' => array(
[maximum depth reached]
),
'ENSG00000261376' => array(
[maximum depth reached]
),
'ENSG00000261390' => array(
[maximum depth reached]
),
'ENSG00000279378' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adrenal',
(int) 1 => 'Placenta',
(int) 2 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 4 => 'Brain',
(int) 5 => 'Breast',
(int) 6 => 'Heart',
(int) 7 => 'Kidney',
(int) 8 => 'Liver',
(int) 9 => 'Placenta',
(int) 10 => 'Adrenal',
(int) 11 => 'Brain',
(int) 12 => 'Breast',
(int) 13 => 'Colon',
(int) 14 => 'Ovary',
(int) 15 => 'Placenta',
(int) 16 => 'Placenta',
(int) 17 => 'Lung',
(int) 18 => 'Ovary',
(int) 19 => 'Placenta',
(int) 20 => 'Placenta',
(int) 21 => 'Colon',
(int) 22 => 'Ovary',
(int) 23 => 'Placenta',
(int) 24 => 'Placenta',
(int) 25 => 'Ovary',
(int) 26 => 'Ovary',
(int) 27 => 'Testis',
(int) 28 => 'Adrenal',
(int) 29 => 'Bladder',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Heart',
(int) 34 => 'Kidney',
(int) 35 => 'Liver',
(int) 36 => 'Ovary',
(int) 37 => 'Placenta',
(int) 38 => 'Testis',
(int) 39 => 'Adipose',
(int) 40 => 'Bladder',
(int) 41 => 'Kidney',
(int) 42 => 'Liver',
(int) 43 => 'Lung',
(int) 44 => 'Placenta',
(int) 45 => 'Testis',
(int) 46 => 'Liver',
(int) 47 => 'Placenta',
(int) 48 => 'Adipose',
(int) 49 => 'Adrenal',
(int) 50 => 'Brain',
(int) 51 => 'Breast',
(int) 52 => 'Colon',
(int) 53 => 'Heart',
(int) 54 => 'Kidney',
(int) 55 => 'Liver',
(int) 56 => 'Lung',
(int) 57 => 'Muscle',
(int) 58 => 'Ovary',
(int) 59 => 'Placenta',
(int) 60 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSG00000221330' => null,
'ENSG00000259867' => null,
'ENSG00000260237' => null,
'ENSG00000260706' => null,
'ENSG00000260876' => null,
'ENSG00000261082' => 'long intergenic non-protein coding RNA 1228',
'ENSG00000261376' => null,
'ENSG00000261390' => null,
'ENSG00000279378' => null
)
$gene_name_arr = array(
'ENSG00000221330' => 'AC009159.1',
'ENSG00000259867' => 'RP11-525K10.3',
'ENSG00000260237' => 'RP11-148M9.1',
'ENSG00000260706' => 'RP11-525K10.1',
'ENSG00000260876' => 'RP11-345M22.1',
'ENSG00000261082' => 'LINC01228',
'ENSG00000261376' => 'RP11-525K10.2',
'ENSG00000261390' => 'RP11-345M22.2',
'ENSG00000279378' => 'RP11-70D24.1'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0008IE_0001',
'tax_id' => '9606',
'chromosome' => '16',
'seq_start' => '79636010',
'seq_end' => '80237400',
'region_length' => '601390',
'region_type' => 'VISTA',
'el_id' => 'hs5'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0008IE_0002',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '115713572',
'seq_end' => '116315153',
'region_length' => '601581',
'region_type' => 'VISTA',
'el_id' => 'hs5'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 8 => 'Bladder',
(int) 10 => 'Brain',
(int) 14 => 'Breast',
(int) 18 => 'Colon',
(int) 22 => 'Heart',
(int) 25 => 'Kidney',
(int) 29 => 'Liver',
(int) 34 => 'Lung',
(int) 37 => 'Muscle',
(int) 38 => 'Ovary',
(int) 45 => 'Placenta',
(int) 57 => 'Testis'
)
$column_titles = array(
(int) 0 => 'Region Sub-Accession',
(int) 1 => 'Tax ID',
(int) 2 => 'Position',
(int) 3 => 'Region Length'
)
$geneviewer = array(
(int) 9606 => array(
'version' => 'GRCh38',
'coord_key' => 'Homo sapiens',
'reference_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.reference',
'gene_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.gene',
'transcript_url' => 'http://www.ensembl.org/das/Homo_sapiens.GRCh38.transcript',
'desc' => 'Gene structures from GENCODE 19',
'twoBitURI' => '/static/files/GRCh38.2bit',
'bwgURI' => '/static/files/GRCh38.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
),
(int) 10090 => array(
'version' => 'GRCm38',
'coord_key' => 'Mus musculus',
'reference_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.reference',
'gene_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.gene',
'transcript_url' => 'http://www.ensembl.org/das/Mus_musculus.GRCm38.transcript',
'desc' => 'Gene structures from GENCODE 19',
'twoBitURI' => '/static/files/GRCm38.2bit',
'bwgURI' => '/static/files/GRCm38.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
),
(int) 7955 => array(
'version' => 'Zv9',
'coord_key' => 'Danio rerio',
'reference_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.reference',
'gene_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.gene',
'transcript_url' => 'http://www.ensembl.org/das/Danio_rerio.Zv9.transcript',
'twoBitURI' => '/static/files/Zv9.2bit',
'bwgURI' => '/static/files/Zv9.77.bb',
'stylesheet_uri' => '/static/files/gencode.xml',
'collapseSuperGroups' => 'true',
'trixURI' => '//www.biodalliance.org/datasets/geneIndex.ix'
)
)
$transcript_count = (int) 22
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000408403' => array(
'start' => '79669655',
'end' => '79669737',
'transcript_biotype' => 'miRNA',
'transcript_name' => 'AC009159.1-201'
),
'ENST00000563267' => array(
'start' => '80526839',
'end' => '80540953',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-006'
),
'ENST00000564411' => array(
'start' => '80507569',
'end' => '80540867',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-004'
),
'ENST00000565050' => array(
'start' => '80155249',
'end' => '80540947',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-001'
),
'ENST00000568552' => array(
'start' => '80528642',
'end' => '80540877',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-002'
),
'ENST00000568776' => array(
'start' => '80155053',
'end' => '80563135',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-005'
),
'ENST00000568819' => array(
'start' => '80218035',
'end' => '80540870',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-525K10.3-003'
),
'ENST00000565531' => array(
'start' => '80040662',
'end' => '80045745',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-148M9.1-001'
),
'ENST00000563397' => array(
'start' => '80065849',
'end' => '80167577',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-525K10.1-002'
),
'ENST00000567851' => array(
'start' => '80065836',
'end' => '80157655',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-525K10.1-001'
),
'ENST00000561510' => array(
'start' => '79713847',
'end' => '79799090',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-002'
),
'ENST00000563360' => array(
'start' => '79676108',
'end' => '79726429',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-001'
),
'ENST00000567665' => array(
'start' => '79798534',
'end' => '79799090',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-004'
),
'ENST00000568751' => array(
'start' => '79770471',
'end' => '79801343',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-003'
),
'ENST00000569164' => array(
'start' => '79798593',
'end' => '79807922',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.1-005'
),
'ENST00000567966' => array(
'start' => '79798050',
'end' => '79827150',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'LINC01228-001'
),
'ENST00000566030' => array(
'start' => '80179129',
'end' => '80180682',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-525K10.2-001'
),
'ENST00000562921' => array(
'start' => '79715232',
'end' => '79770563',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.2-002'
),
'ENST00000566729' => array(
'start' => '79750692',
'end' => '79770563',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.2-001'
),
'ENST00000567993' => array(
'start' => '79721312',
'end' => '79770532',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.2-003'
),
'ENST00000568389' => array(
'start' => '79753386',
'end' => '79770301',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'RP11-345M22.2-004'
),
'ENST00000624606' => array(
'start' => '79675685',
'end' => '79677715',
'transcript_biotype' => 'TEC',
'transcript_name' => 'RP11-70D24.1-001'
)
)
$accession_map = array(
'ENST000' => '9606',
'ENSMUST' => '10090',
'ENSDART' => '7955',
'ENSG000' => '9606',
'ENSMUSG' => '10090',
'ENSDARG' => '7955'
)
$sci_name_map = array(
(int) 9606 => 'Homo_sapiens',
(int) 10090 => 'Mus_musculus',
(int) 7955 => 'Danio_rerio'
)
$UCSC_links = array(
(int) 7955 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=danRer7&position=',
(int) 9606 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=',
(int) 10090 => 'http://genome.ucsc.edu/cgi-bin/hgTracks?db=mm10&position='
)
$expressed_region_arr = array(
'CIL_0008IE_0001' => array(
'genes_in_region' => array(
'ENSG00000260876' => array(
[maximum depth reached]
),
'ENSG00000261082' => array(
[maximum depth reached]
),
'ENSG00000261376' => array(
[maximum depth reached]
),
'ENSG00000261390' => array(
[maximum depth reached]
),
'ENSG00000279378' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adrenal',
(int) 1 => 'Placenta',
(int) 2 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 4 => 'Brain',
(int) 5 => 'Breast',
(int) 6 => 'Heart',
(int) 7 => 'Kidney',
(int) 8 => 'Liver',
(int) 9 => 'Placenta',
(int) 10 => 'Adrenal',
(int) 11 => 'Brain',
(int) 12 => 'Breast',
(int) 13 => 'Colon',
(int) 14 => 'Ovary',
(int) 15 => 'Placenta',
(int) 16 => 'Placenta',
(int) 17 => 'Lung',
(int) 18 => 'Ovary',
(int) 19 => 'Placenta',
(int) 20 => 'Placenta',
(int) 21 => 'Colon',
(int) 22 => 'Ovary',
(int) 23 => 'Placenta',
(int) 24 => 'Placenta',
(int) 25 => 'Ovary',
(int) 26 => 'Ovary',
(int) 27 => 'Testis',
(int) 28 => 'Adrenal',
(int) 29 => 'Bladder',
(int) 30 => 'Brain',
(int) 31 => 'Breast',
(int) 32 => 'Colon',
(int) 33 => 'Heart',
(int) 34 => 'Kidney',
(int) 35 => 'Liver',
(int) 36 => 'Ovary',
(int) 37 => 'Placenta',
(int) 38 => 'Testis',
(int) 39 => 'Adipose',
(int) 40 => 'Bladder',
(int) 41 => 'Kidney',
(int) 42 => 'Liver',
(int) 43 => 'Lung',
(int) 44 => 'Placenta',
(int) 45 => 'Testis',
(int) 46 => 'Liver',
(int) 47 => 'Placenta',
(int) 48 => 'Adipose',
(int) 49 => 'Adrenal',
(int) 50 => 'Brain',
(int) 51 => 'Breast',
(int) 52 => 'Colon',
(int) 53 => 'Heart',
(int) 54 => 'Kidney',
(int) 55 => 'Liver',
(int) 56 => 'Lung',
(int) 57 => 'Muscle',
(int) 58 => 'Ovary',
(int) 59 => 'Placenta',
(int) 60 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0008IE_0002',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '115713572',
'seq_end' => '116315153',
'region_length' => '601581',
'region_type' => 'VISTA',
'el_id' => 'hs5'
)
)
$gene_el = array(
'ENST00000624606' => array(
'Adipose' => array(
'average_FPKM' => '0.094',
'stddev_FPKM' => '0.00'
),
'Adrenal' => array(
'average_FPKM' => '0.312',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.209',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.150',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '0.102',
'stddev_FPKM' => '0.00'
),
'Heart' => array(
'average_FPKM' => '0.023',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.109',
'stddev_FPKM' => '0.00'
),
'Liver' => array(
'average_FPKM' => '0.076',
'stddev_FPKM' => '0.04'
),
'Lung' => array(
'average_FPKM' => '0.085',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.005',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.092',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.011',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.384',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSG00000279378'
$is_first = false
$tran_el = array(
'Adipose' => array(
'average_FPKM' => '0.094',
'stddev_FPKM' => '0.00'
),
'Adrenal' => array(
'average_FPKM' => '0.312',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.209',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.150',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '0.102',
'stddev_FPKM' => '0.00'
),
'Heart' => array(
'average_FPKM' => '0.023',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.109',
'stddev_FPKM' => '0.00'
),
'Liver' => array(
'average_FPKM' => '0.076',
'stddev_FPKM' => '0.04'
),
'Lung' => array(
'average_FPKM' => '0.085',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.005',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.092',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '0.011',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.384',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENST00000624606'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
(RP11-345M22.1)