| Source ID |
Type |
Tax ID |
Position |
| TEAD1 |
UCNEbase |
10090 |
7:112812216-112906757  |
| Gene | Transcript | Position | Biotype |
|---|
Notice (8): Undefined index: CIL_0007PM_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_0007PM_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007PM_0005' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007PM_0006' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000187079' => 'TEA domain family member 1 (SV40 transcriptional enhancer factor)',
'ENSG00000203258' => null,
'ENSG00000252329' => 'Small Cajal body specific RNA 16',
'ENSG00000255067' => null,
'ENSDARG00000087397' => 'TEA domain family member 1 (SV40 transcriptional enhancer factor)',
'ENSDARG00000059483' => 'TEA domain family member 1b',
'ENSDARG00000090390' => 'Uncharacterized protein',
'ENSDARG00000097673' => 'si:ch73-267i21.1'
),
'gene_name_arr' => array(
'ENSG00000187079' => 'TEAD1',
'ENSG00000203258' => 'RP11-47J17.2',
'ENSG00000252329' => 'SCARNA16',
'ENSG00000255067' => 'RP11-47J17.1',
'ENSDARG00000087397' => 'TEAD1 (3 of 3)',
'ENSDARG00000059483' => 'tead1b',
'ENSDARG00000090390' => 'FP016235.1',
'ENSDARG00000097673' => 'si:ch73-267i21.1'
),
'accession_table' => array(
(int) 0 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 1 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 2 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 3 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 4 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 5 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 2 => 'Adrenal',
(int) 4 => 'Bladder',
(int) 6 => 'Brain',
(int) 14 => 'Breast',
(int) 19 => 'Colon',
(int) 24 => 'Heart',
(int) 32 => 'Kidney',
(int) 38 => 'Liver',
(int) 45 => 'Lung',
(int) 50 => 'Muscle',
(int) 55 => 'Ovary',
(int) 60 => 'Placenta',
(int) 61 => '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) 15,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000334310' => array(
'start' => '12675503',
'end' => '12939065',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-201'
),
'ENST00000361985' => array(
'start' => '12745041',
'end' => '12943945',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-202'
),
'ENST00000525312' => array(
'start' => '12828121',
'end' => '12865539',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'TEAD1-004'
),
'ENST00000526600' => array(
'start' => '12879443',
'end' => '12944483',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-007'
),
'ENST00000527376' => array(
'start' => '12674617',
'end' => '12764437',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-006'
),
'ENST00000527575' => array(
'start' => '12675503',
'end' => '12939065',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-002'
),
'ENST00000527636' => array(
'start' => '12674591',
'end' => '12938034',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-001'
),
'ENST00000454086' => array(
'start' => '12921186',
'end' => '12922925',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-47J17.2-001'
),
'ENST00000516520' => array(
'start' => '12904817',
'end' => '12904988',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'SCARNA16.1-202'
),
'ENST00000528792' => array(
'start' => '12848795',
'end' => '12849433',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP11-47J17.1-001'
),
'ENSDART00000121748' => array(
'start' => '67119352',
'end' => '67161097',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1 (3 of 3)-201'
),
'ENSDART00000082740' => array(
'start' => '68134112',
'end' => '68174675',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tead1b-201'
),
'ENSDART00000150143' => array(
'start' => '68126189',
'end' => '68174675',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tead1b-001'
),
'ENSDART00000121532' => array(
'start' => '68204967',
'end' => '68266768',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'FP016235.1-201'
),
'ENSDART00000156683' => array(
'start' => '68245263',
'end' => '68247020',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch73-267i21.1-001'
)
),
'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_0007PM_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007PM_0005' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007PM_0006' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007PM_0001' => array(
'genes_in_region' => array(
'ENSG00000187079' => array(
[maximum depth reached]
),
'ENSG00000203258' => array(
[maximum depth reached]
),
'ENSG00000252329' => array(
[maximum depth reached]
),
'ENSG00000255067' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Breast',
(int) 1 => 'Heart',
(int) 2 => 'Liver',
(int) 3 => 'Muscle',
(int) 4 => 'Brain',
(int) 5 => 'Colon',
(int) 6 => 'Heart',
(int) 7 => 'Kidney',
(int) 8 => 'Liver',
(int) 9 => 'Lung',
(int) 10 => 'Muscle',
(int) 11 => 'Bladder',
(int) 12 => 'Breast',
(int) 13 => 'Liver',
(int) 14 => 'Lung',
(int) 15 => 'Ovary',
(int) 16 => 'Placenta',
(int) 17 => 'Testis',
(int) 18 => 'Bladder',
(int) 19 => 'Brain',
(int) 20 => 'Colon',
(int) 21 => 'Lung',
(int) 22 => 'Ovary',
(int) 23 => 'Adipose',
(int) 24 => 'Adrenal',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Colon',
(int) 28 => 'Heart',
(int) 29 => 'Kidney',
(int) 30 => 'Liver',
(int) 31 => 'Lung',
(int) 32 => 'Muscle',
(int) 33 => 'Ovary',
(int) 34 => 'Testis',
(int) 35 => 'Breast',
(int) 36 => 'Colon',
(int) 37 => 'Heart',
(int) 38 => 'Ovary',
(int) 39 => 'Testis',
(int) 40 => 'Adipose',
(int) 41 => 'Adrenal',
(int) 42 => 'Brain',
(int) 43 => 'Breast',
(int) 44 => 'Colon',
(int) 45 => 'Kidney',
(int) 46 => 'Liver',
(int) 47 => 'Lung',
(int) 48 => 'Ovary',
(int) 49 => 'Testis'
)
),
'CIL_0007PM_0005' => array(
'genes_in_region' => array(
'ENSDARG00000087397' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Muscle'
)
),
'CIL_0007PM_0006' => array(
'genes_in_region' => array(
'ENSDARG00000090390' => array(
[maximum depth reached]
),
'ENSDARG00000097673' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Liver',
(int) 4 => 'Brain',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Muscle',
(int) 9 => 'Brain',
(int) 10 => 'Heart',
(int) 11 => 'Kidney'
)
)
)
$gene_desc_arr = array(
'ENSG00000187079' => 'TEA domain family member 1 (SV40 transcriptional enhancer factor)',
'ENSG00000203258' => null,
'ENSG00000252329' => 'Small Cajal body specific RNA 16',
'ENSG00000255067' => null,
'ENSDARG00000087397' => 'TEA domain family member 1 (SV40 transcriptional enhancer factor)',
'ENSDARG00000059483' => 'TEA domain family member 1b',
'ENSDARG00000090390' => 'Uncharacterized protein',
'ENSDARG00000097673' => 'si:ch73-267i21.1'
)
$gene_name_arr = array(
'ENSG00000187079' => 'TEAD1',
'ENSG00000203258' => 'RP11-47J17.2',
'ENSG00000252329' => 'SCARNA16',
'ENSG00000255067' => 'RP11-47J17.1',
'ENSDARG00000087397' => 'TEAD1 (3 of 3)',
'ENSDARG00000059483' => 'tead1b',
'ENSDARG00000090390' => 'FP016235.1',
'ENSDARG00000097673' => 'si:ch73-267i21.1'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007PM_0001',
'tax_id' => '9606',
'chromosome' => '11',
'seq_start' => '12832659',
'seq_end' => '12944704',
'region_length' => '112045',
'region_type' => 'UCNEbase',
'el_id' => 'TEAD1'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007PM_0002',
'tax_id' => '10090',
'chromosome' => '7',
'seq_start' => '112812216',
'seq_end' => '112906757',
'region_length' => '94541',
'region_type' => 'UCNEbase',
'el_id' => 'TEAD1'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007PM_0003',
'tax_id' => '7955',
'chromosome' => '23',
'seq_start' => '5671332',
'seq_end' => '5671477',
'region_length' => '145',
'region_type' => 'UCNEbase',
'el_id' => 'TEAD1'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007PM_0004',
'tax_id' => '7955',
'chromosome' => '6',
'seq_start' => '54600708',
'seq_end' => '54600886',
'region_length' => '178',
'region_type' => 'UCNEbase',
'el_id' => 'TEAD1'
)
),
(int) 4 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007PM_0005',
'tax_id' => '7955',
'chromosome' => '7',
'seq_start' => '67111463',
'seq_end' => '67190046',
'region_length' => '78583',
'region_type' => 'UCNEbase',
'el_id' => 'TEAD1'
)
),
(int) 5 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007PM_0006',
'tax_id' => '7955',
'chromosome' => '7',
'seq_start' => '68126217',
'seq_end' => '68266999',
'region_length' => '140782',
'region_type' => 'UCNEbase',
'el_id' => 'TEAD1'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 2 => 'Adrenal',
(int) 4 => 'Bladder',
(int) 6 => 'Brain',
(int) 14 => 'Breast',
(int) 19 => 'Colon',
(int) 24 => 'Heart',
(int) 32 => 'Kidney',
(int) 38 => 'Liver',
(int) 45 => 'Lung',
(int) 50 => 'Muscle',
(int) 55 => 'Ovary',
(int) 60 => 'Placenta',
(int) 61 => '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) 15
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000334310' => array(
'start' => '12675503',
'end' => '12939065',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-201'
),
'ENST00000361985' => array(
'start' => '12745041',
'end' => '12943945',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-202'
),
'ENST00000525312' => array(
'start' => '12828121',
'end' => '12865539',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'TEAD1-004'
),
'ENST00000526600' => array(
'start' => '12879443',
'end' => '12944483',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-007'
),
'ENST00000527376' => array(
'start' => '12674617',
'end' => '12764437',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-006'
),
'ENST00000527575' => array(
'start' => '12675503',
'end' => '12939065',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-002'
),
'ENST00000527636' => array(
'start' => '12674591',
'end' => '12938034',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-001'
),
'ENST00000454086' => array(
'start' => '12921186',
'end' => '12922925',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-47J17.2-001'
),
'ENST00000516520' => array(
'start' => '12904817',
'end' => '12904988',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'SCARNA16.1-202'
),
'ENST00000528792' => array(
'start' => '12848795',
'end' => '12849433',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP11-47J17.1-001'
),
'ENSDART00000121748' => array(
'start' => '67119352',
'end' => '67161097',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1 (3 of 3)-201'
),
'ENSDART00000082740' => array(
'start' => '68134112',
'end' => '68174675',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tead1b-201'
),
'ENSDART00000150143' => array(
'start' => '68126189',
'end' => '68174675',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tead1b-001'
),
'ENSDART00000121532' => array(
'start' => '68204967',
'end' => '68266768',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'FP016235.1-201'
),
'ENSDART00000156683' => array(
'start' => '68245263',
'end' => '68247020',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch73-267i21.1-001'
)
)
$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_0007PM_0001' => array(
'genes_in_region' => array(
'ENSG00000187079' => array(
[maximum depth reached]
),
'ENSG00000203258' => array(
[maximum depth reached]
),
'ENSG00000252329' => array(
[maximum depth reached]
),
'ENSG00000255067' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Breast',
(int) 1 => 'Heart',
(int) 2 => 'Liver',
(int) 3 => 'Muscle',
(int) 4 => 'Brain',
(int) 5 => 'Colon',
(int) 6 => 'Heart',
(int) 7 => 'Kidney',
(int) 8 => 'Liver',
(int) 9 => 'Lung',
(int) 10 => 'Muscle',
(int) 11 => 'Bladder',
(int) 12 => 'Breast',
(int) 13 => 'Liver',
(int) 14 => 'Lung',
(int) 15 => 'Ovary',
(int) 16 => 'Placenta',
(int) 17 => 'Testis',
(int) 18 => 'Bladder',
(int) 19 => 'Brain',
(int) 20 => 'Colon',
(int) 21 => 'Lung',
(int) 22 => 'Ovary',
(int) 23 => 'Adipose',
(int) 24 => 'Adrenal',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Colon',
(int) 28 => 'Heart',
(int) 29 => 'Kidney',
(int) 30 => 'Liver',
(int) 31 => 'Lung',
(int) 32 => 'Muscle',
(int) 33 => 'Ovary',
(int) 34 => 'Testis',
(int) 35 => 'Breast',
(int) 36 => 'Colon',
(int) 37 => 'Heart',
(int) 38 => 'Ovary',
(int) 39 => 'Testis',
(int) 40 => 'Adipose',
(int) 41 => 'Adrenal',
(int) 42 => 'Brain',
(int) 43 => 'Breast',
(int) 44 => 'Colon',
(int) 45 => 'Kidney',
(int) 46 => 'Liver',
(int) 47 => 'Lung',
(int) 48 => 'Ovary',
(int) 49 => 'Testis'
)
),
'CIL_0007PM_0005' => array(
'genes_in_region' => array(
'ENSDARG00000087397' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Muscle'
)
),
'CIL_0007PM_0006' => array(
'genes_in_region' => array(
'ENSDARG00000090390' => array(
[maximum depth reached]
),
'ENSDARG00000097673' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Liver',
(int) 4 => 'Brain',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Muscle',
(int) 9 => 'Brain',
(int) 10 => 'Heart',
(int) 11 => 'Kidney'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007PM_0002',
'tax_id' => '10090',
'chromosome' => '7',
'seq_start' => '112812216',
'seq_end' => '112906757',
'region_length' => '94541',
'region_type' => 'UCNEbase',
'el_id' => 'TEAD1'
)
)
$gene_el = array(
'ENST00000528792' => array(
'Adipose' => array(
'average_FPKM' => '0.214',
'stddev_FPKM' => '0.00'
),
'Adrenal' => array(
'average_FPKM' => '0.176',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.300',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.458',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '0.083',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.723',
'stddev_FPKM' => '0.68'
),
'Liver' => array(
'average_FPKM' => '0.152',
'stddev_FPKM' => '0.00'
),
'Lung' => array(
'average_FPKM' => '0.433',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.728',
'stddev_FPKM' => '0.56'
),
'Testis' => array(
'average_FPKM' => '0.247',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSG00000255067'
$is_first = false
$tran_el = array(
'Adipose' => array(
'average_FPKM' => '0.214',
'stddev_FPKM' => '0.00'
),
'Adrenal' => array(
'average_FPKM' => '0.176',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.300',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.458',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '0.083',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.723',
'stddev_FPKM' => '0.68'
),
'Liver' => array(
'average_FPKM' => '0.152',
'stddev_FPKM' => '0.00'
),
'Lung' => array(
'average_FPKM' => '0.433',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.728',
'stddev_FPKM' => '0.56'
),
'Testis' => array(
'average_FPKM' => '0.247',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENST00000528792'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_0007PM_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007PM_0005' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007PM_0006' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000187079' => 'TEA domain family member 1 (SV40 transcriptional enhancer factor)',
'ENSG00000203258' => null,
'ENSG00000252329' => 'Small Cajal body specific RNA 16',
'ENSG00000255067' => null,
'ENSDARG00000087397' => 'TEA domain family member 1 (SV40 transcriptional enhancer factor)',
'ENSDARG00000059483' => 'TEA domain family member 1b',
'ENSDARG00000090390' => 'Uncharacterized protein',
'ENSDARG00000097673' => 'si:ch73-267i21.1'
),
'gene_name_arr' => array(
'ENSG00000187079' => 'TEAD1',
'ENSG00000203258' => 'RP11-47J17.2',
'ENSG00000252329' => 'SCARNA16',
'ENSG00000255067' => 'RP11-47J17.1',
'ENSDARG00000087397' => 'TEAD1 (3 of 3)',
'ENSDARG00000059483' => 'tead1b',
'ENSDARG00000090390' => 'FP016235.1',
'ENSDARG00000097673' => 'si:ch73-267i21.1'
),
'accession_table' => array(
(int) 0 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 1 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 2 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 3 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 4 => array(
'region_elements' => array(
[maximum depth reached]
)
),
(int) 5 => array(
'region_elements' => array(
[maximum depth reached]
)
)
),
'all_tissues' => array(
(int) 0 => 'Adipose',
(int) 2 => 'Adrenal',
(int) 4 => 'Bladder',
(int) 6 => 'Brain',
(int) 14 => 'Breast',
(int) 19 => 'Colon',
(int) 24 => 'Heart',
(int) 32 => 'Kidney',
(int) 38 => 'Liver',
(int) 45 => 'Lung',
(int) 50 => 'Muscle',
(int) 55 => 'Ovary',
(int) 60 => 'Placenta',
(int) 61 => '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) 15,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000334310' => array(
'start' => '12675503',
'end' => '12939065',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-201'
),
'ENST00000361985' => array(
'start' => '12745041',
'end' => '12943945',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-202'
),
'ENST00000525312' => array(
'start' => '12828121',
'end' => '12865539',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'TEAD1-004'
),
'ENST00000526600' => array(
'start' => '12879443',
'end' => '12944483',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-007'
),
'ENST00000527376' => array(
'start' => '12674617',
'end' => '12764437',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-006'
),
'ENST00000527575' => array(
'start' => '12675503',
'end' => '12939065',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-002'
),
'ENST00000527636' => array(
'start' => '12674591',
'end' => '12938034',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-001'
),
'ENST00000454086' => array(
'start' => '12921186',
'end' => '12922925',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-47J17.2-001'
),
'ENST00000516520' => array(
'start' => '12904817',
'end' => '12904988',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'SCARNA16.1-202'
),
'ENST00000528792' => array(
'start' => '12848795',
'end' => '12849433',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP11-47J17.1-001'
),
'ENSDART00000121748' => array(
'start' => '67119352',
'end' => '67161097',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1 (3 of 3)-201'
),
'ENSDART00000082740' => array(
'start' => '68134112',
'end' => '68174675',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tead1b-201'
),
'ENSDART00000150143' => array(
'start' => '68126189',
'end' => '68174675',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tead1b-001'
),
'ENSDART00000121532' => array(
'start' => '68204967',
'end' => '68266768',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'FP016235.1-201'
),
'ENSDART00000156683' => array(
'start' => '68245263',
'end' => '68247020',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch73-267i21.1-001'
)
),
'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_0007PM_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007PM_0005' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
),
'CIL_0007PM_0006' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0007PM_0001' => array(
'genes_in_region' => array(
'ENSG00000187079' => array(
[maximum depth reached]
),
'ENSG00000203258' => array(
[maximum depth reached]
),
'ENSG00000252329' => array(
[maximum depth reached]
),
'ENSG00000255067' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Breast',
(int) 1 => 'Heart',
(int) 2 => 'Liver',
(int) 3 => 'Muscle',
(int) 4 => 'Brain',
(int) 5 => 'Colon',
(int) 6 => 'Heart',
(int) 7 => 'Kidney',
(int) 8 => 'Liver',
(int) 9 => 'Lung',
(int) 10 => 'Muscle',
(int) 11 => 'Bladder',
(int) 12 => 'Breast',
(int) 13 => 'Liver',
(int) 14 => 'Lung',
(int) 15 => 'Ovary',
(int) 16 => 'Placenta',
(int) 17 => 'Testis',
(int) 18 => 'Bladder',
(int) 19 => 'Brain',
(int) 20 => 'Colon',
(int) 21 => 'Lung',
(int) 22 => 'Ovary',
(int) 23 => 'Adipose',
(int) 24 => 'Adrenal',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Colon',
(int) 28 => 'Heart',
(int) 29 => 'Kidney',
(int) 30 => 'Liver',
(int) 31 => 'Lung',
(int) 32 => 'Muscle',
(int) 33 => 'Ovary',
(int) 34 => 'Testis',
(int) 35 => 'Breast',
(int) 36 => 'Colon',
(int) 37 => 'Heart',
(int) 38 => 'Ovary',
(int) 39 => 'Testis',
(int) 40 => 'Adipose',
(int) 41 => 'Adrenal',
(int) 42 => 'Brain',
(int) 43 => 'Breast',
(int) 44 => 'Colon',
(int) 45 => 'Kidney',
(int) 46 => 'Liver',
(int) 47 => 'Lung',
(int) 48 => 'Ovary',
(int) 49 => 'Testis'
)
),
'CIL_0007PM_0005' => array(
'genes_in_region' => array(
'ENSDARG00000087397' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Muscle'
)
),
'CIL_0007PM_0006' => array(
'genes_in_region' => array(
'ENSDARG00000090390' => array(
[maximum depth reached]
),
'ENSDARG00000097673' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Liver',
(int) 4 => 'Brain',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Muscle',
(int) 9 => 'Brain',
(int) 10 => 'Heart',
(int) 11 => 'Kidney'
)
)
)
$gene_desc_arr = array(
'ENSG00000187079' => 'TEA domain family member 1 (SV40 transcriptional enhancer factor)',
'ENSG00000203258' => null,
'ENSG00000252329' => 'Small Cajal body specific RNA 16',
'ENSG00000255067' => null,
'ENSDARG00000087397' => 'TEA domain family member 1 (SV40 transcriptional enhancer factor)',
'ENSDARG00000059483' => 'TEA domain family member 1b',
'ENSDARG00000090390' => 'Uncharacterized protein',
'ENSDARG00000097673' => 'si:ch73-267i21.1'
)
$gene_name_arr = array(
'ENSG00000187079' => 'TEAD1',
'ENSG00000203258' => 'RP11-47J17.2',
'ENSG00000252329' => 'SCARNA16',
'ENSG00000255067' => 'RP11-47J17.1',
'ENSDARG00000087397' => 'TEAD1 (3 of 3)',
'ENSDARG00000059483' => 'tead1b',
'ENSDARG00000090390' => 'FP016235.1',
'ENSDARG00000097673' => 'si:ch73-267i21.1'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007PM_0001',
'tax_id' => '9606',
'chromosome' => '11',
'seq_start' => '12832659',
'seq_end' => '12944704',
'region_length' => '112045',
'region_type' => 'UCNEbase',
'el_id' => 'TEAD1'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007PM_0002',
'tax_id' => '10090',
'chromosome' => '7',
'seq_start' => '112812216',
'seq_end' => '112906757',
'region_length' => '94541',
'region_type' => 'UCNEbase',
'el_id' => 'TEAD1'
)
),
(int) 2 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007PM_0003',
'tax_id' => '7955',
'chromosome' => '23',
'seq_start' => '5671332',
'seq_end' => '5671477',
'region_length' => '145',
'region_type' => 'UCNEbase',
'el_id' => 'TEAD1'
)
),
(int) 3 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007PM_0004',
'tax_id' => '7955',
'chromosome' => '6',
'seq_start' => '54600708',
'seq_end' => '54600886',
'region_length' => '178',
'region_type' => 'UCNEbase',
'el_id' => 'TEAD1'
)
),
(int) 4 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007PM_0005',
'tax_id' => '7955',
'chromosome' => '7',
'seq_start' => '67111463',
'seq_end' => '67190046',
'region_length' => '78583',
'region_type' => 'UCNEbase',
'el_id' => 'TEAD1'
)
),
(int) 5 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0007PM_0006',
'tax_id' => '7955',
'chromosome' => '7',
'seq_start' => '68126217',
'seq_end' => '68266999',
'region_length' => '140782',
'region_type' => 'UCNEbase',
'el_id' => 'TEAD1'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 2 => 'Adrenal',
(int) 4 => 'Bladder',
(int) 6 => 'Brain',
(int) 14 => 'Breast',
(int) 19 => 'Colon',
(int) 24 => 'Heart',
(int) 32 => 'Kidney',
(int) 38 => 'Liver',
(int) 45 => 'Lung',
(int) 50 => 'Muscle',
(int) 55 => 'Ovary',
(int) 60 => 'Placenta',
(int) 61 => '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) 15
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000334310' => array(
'start' => '12675503',
'end' => '12939065',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-201'
),
'ENST00000361985' => array(
'start' => '12745041',
'end' => '12943945',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-202'
),
'ENST00000525312' => array(
'start' => '12828121',
'end' => '12865539',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'TEAD1-004'
),
'ENST00000526600' => array(
'start' => '12879443',
'end' => '12944483',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-007'
),
'ENST00000527376' => array(
'start' => '12674617',
'end' => '12764437',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-006'
),
'ENST00000527575' => array(
'start' => '12675503',
'end' => '12939065',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-002'
),
'ENST00000527636' => array(
'start' => '12674591',
'end' => '12938034',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1-001'
),
'ENST00000454086' => array(
'start' => '12921186',
'end' => '12922925',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-47J17.2-001'
),
'ENST00000516520' => array(
'start' => '12904817',
'end' => '12904988',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'SCARNA16.1-202'
),
'ENST00000528792' => array(
'start' => '12848795',
'end' => '12849433',
'transcript_biotype' => 'sense_intronic',
'transcript_name' => 'RP11-47J17.1-001'
),
'ENSDART00000121748' => array(
'start' => '67119352',
'end' => '67161097',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'TEAD1 (3 of 3)-201'
),
'ENSDART00000082740' => array(
'start' => '68134112',
'end' => '68174675',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tead1b-201'
),
'ENSDART00000150143' => array(
'start' => '68126189',
'end' => '68174675',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'tead1b-001'
),
'ENSDART00000121532' => array(
'start' => '68204967',
'end' => '68266768',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'FP016235.1-201'
),
'ENSDART00000156683' => array(
'start' => '68245263',
'end' => '68247020',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'si:ch73-267i21.1-001'
)
)
$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_0007PM_0001' => array(
'genes_in_region' => array(
'ENSG00000187079' => array(
[maximum depth reached]
),
'ENSG00000203258' => array(
[maximum depth reached]
),
'ENSG00000252329' => array(
[maximum depth reached]
),
'ENSG00000255067' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Breast',
(int) 1 => 'Heart',
(int) 2 => 'Liver',
(int) 3 => 'Muscle',
(int) 4 => 'Brain',
(int) 5 => 'Colon',
(int) 6 => 'Heart',
(int) 7 => 'Kidney',
(int) 8 => 'Liver',
(int) 9 => 'Lung',
(int) 10 => 'Muscle',
(int) 11 => 'Bladder',
(int) 12 => 'Breast',
(int) 13 => 'Liver',
(int) 14 => 'Lung',
(int) 15 => 'Ovary',
(int) 16 => 'Placenta',
(int) 17 => 'Testis',
(int) 18 => 'Bladder',
(int) 19 => 'Brain',
(int) 20 => 'Colon',
(int) 21 => 'Lung',
(int) 22 => 'Ovary',
(int) 23 => 'Adipose',
(int) 24 => 'Adrenal',
(int) 25 => 'Brain',
(int) 26 => 'Breast',
(int) 27 => 'Colon',
(int) 28 => 'Heart',
(int) 29 => 'Kidney',
(int) 30 => 'Liver',
(int) 31 => 'Lung',
(int) 32 => 'Muscle',
(int) 33 => 'Ovary',
(int) 34 => 'Testis',
(int) 35 => 'Breast',
(int) 36 => 'Colon',
(int) 37 => 'Heart',
(int) 38 => 'Ovary',
(int) 39 => 'Testis',
(int) 40 => 'Adipose',
(int) 41 => 'Adrenal',
(int) 42 => 'Brain',
(int) 43 => 'Breast',
(int) 44 => 'Colon',
(int) 45 => 'Kidney',
(int) 46 => 'Liver',
(int) 47 => 'Lung',
(int) 48 => 'Ovary',
(int) 49 => 'Testis'
)
),
'CIL_0007PM_0005' => array(
'genes_in_region' => array(
'ENSDARG00000087397' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Muscle'
)
),
'CIL_0007PM_0006' => array(
'genes_in_region' => array(
'ENSDARG00000090390' => array(
[maximum depth reached]
),
'ENSDARG00000097673' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Brain',
(int) 1 => 'Heart',
(int) 2 => 'Kidney',
(int) 3 => 'Liver',
(int) 4 => 'Brain',
(int) 5 => 'Heart',
(int) 6 => 'Kidney',
(int) 7 => 'Liver',
(int) 8 => 'Muscle',
(int) 9 => 'Brain',
(int) 10 => 'Heart',
(int) 11 => 'Kidney'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0007PM_0002',
'tax_id' => '10090',
'chromosome' => '7',
'seq_start' => '112812216',
'seq_end' => '112906757',
'region_length' => '94541',
'region_type' => 'UCNEbase',
'el_id' => 'TEAD1'
)
)
$gene_el = array(
'ENST00000528792' => array(
'Adipose' => array(
'average_FPKM' => '0.214',
'stddev_FPKM' => '0.00'
),
'Adrenal' => array(
'average_FPKM' => '0.176',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.300',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.458',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '0.083',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.723',
'stddev_FPKM' => '0.68'
),
'Liver' => array(
'average_FPKM' => '0.152',
'stddev_FPKM' => '0.00'
),
'Lung' => array(
'average_FPKM' => '0.433',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.728',
'stddev_FPKM' => '0.56'
),
'Testis' => array(
'average_FPKM' => '0.247',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSG00000255067'
$is_first = false
$tran_el = array(
'Adipose' => array(
'average_FPKM' => '0.214',
'stddev_FPKM' => '0.00'
),
'Adrenal' => array(
'average_FPKM' => '0.176',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '0.300',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '0.458',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '0.083',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '0.723',
'stddev_FPKM' => '0.68'
),
'Liver' => array(
'average_FPKM' => '0.152',
'stddev_FPKM' => '0.00'
),
'Lung' => array(
'average_FPKM' => '0.433',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '0.728',
'stddev_FPKM' => '0.56'
),
'Testis' => array(
'average_FPKM' => '0.247',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENST00000528792'
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
(TEAD1)