| Source ID |
Type |
Tax ID |
Position |
| ENSMUSG00000017478-ENSMUSG00000046108 |
CGP |
10090 |
8:122376609-122423639  |
| Gene | Transcript | Position | Biotype |
|---|
Notice (8): Undefined index: CIL_0006XT_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_0006XT_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000124391' => 'interleukin 17C',
'ENSG00000158545' => 'zinc finger CCCH-type containing 18',
'ENSMUSG00000017478' => 'zinc finger CCCH-type containing 18',
'ENSMUSG00000046108' => 'interleukin 17C'
),
'gene_name_arr' => array(
'ENSG00000124391' => 'IL17C',
'ENSG00000158545' => 'ZC3H18',
'ENSMUSG00000017478' => 'Zc3h18',
'ENSMUSG00000046108' => 'Il17c'
),
'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) 7 => 'Bladder',
(int) 8 => 'Brain',
(int) 11 => 'Breast',
(int) 17 => 'Colon',
(int) 20 => 'Heart',
(int) 23 => 'Kidney',
(int) 26 => 'Liver',
(int) 27 => 'Lung',
(int) 30 => 'Muscle',
(int) 33 => 'Ovary',
(int) 39 => 'Placenta',
(int) 44 => '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) 25,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000244241' => array(
'start' => '88638593',
'end' => '88640473',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'IL17C-001'
),
'ENST00000569133' => array(
'start' => '88638591',
'end' => '88640122',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'IL17C-002'
),
'ENST00000301011' => array(
'start' => '88570381',
'end' => '88631966',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-001'
),
'ENST00000452588' => array(
'start' => '88570403',
'end' => '88631398',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-002'
),
'ENST00000563382' => array(
'start' => '88624688',
'end' => '88625684',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-010'
),
'ENST00000564161' => array(
'start' => '88608517',
'end' => '88626699',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-004'
),
'ENST00000564341' => array(
'start' => '88624043',
'end' => '88631847',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-014'
),
'ENST00000565583' => array(
'start' => '88627922',
'end' => '88631930',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-013'
),
'ENST00000566317' => array(
'start' => '88628648',
'end' => '88631424',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-011'
),
'ENST00000566496' => array(
'start' => '88627062',
'end' => '88631934',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-005'
),
'ENST00000566660' => array(
'start' => '88630155',
'end' => '88631256',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-012'
),
'ENST00000567085' => array(
'start' => '88586617',
'end' => '88623270',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-009'
),
'ENST00000568072' => array(
'start' => '88599836',
'end' => '88609264',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-008'
),
'ENST00000569435' => array(
'start' => '88570478',
'end' => '88599802',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-007'
),
'ENSMUST00000017622' => array(
'start' => '122376609',
'end' => '122417359',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-001'
),
'ENSMUST00000093073' => array(
'start' => '122376643',
'end' => '122417360',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-002'
),
'ENSMUST00000175798' => array(
'start' => '122408018',
'end' => '122410904',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Zc3h18-010'
),
'ENSMUST00000175819' => array(
'start' => '122403340',
'end' => '122411403',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-008'
),
'ENSMUST00000176629' => array(
'start' => '122376681',
'end' => '122417359',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-005'
),
'ENSMUST00000176699' => array(
'start' => '122376644',
'end' => '122383725',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-007'
),
'ENSMUST00000177049' => array(
'start' => '122411325',
'end' => '122416248',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-009'
),
'ENSMUST00000177123' => array(
'start' => '122407843',
'end' => '122417359',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Zc3h18-004'
),
'ENSMUST00000177195' => array(
'start' => '122403270',
'end' => '122406127',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Zc3h18-011'
),
'ENSMUST00000177386' => array(
'start' => '122376648',
'end' => '122389744',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Zc3h18-003'
),
'ENSMUST00000050963' => array(
'start' => '122422020',
'end' => '122423639',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Il17c-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_0006XT_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0006XT_0001' => array(
'genes_in_region' => array(
'ENSG00000124391' => array(
[maximum depth reached]
),
'ENSG00000158545' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Heart',
(int) 3 => 'Lung',
(int) 4 => 'Ovary',
(int) 5 => 'Placenta',
(int) 6 => 'Testis',
(int) 7 => 'Adrenal',
(int) 8 => 'Ovary',
(int) 9 => 'Testis',
(int) 10 => 'Adipose',
(int) 11 => 'Adrenal',
(int) 12 => 'Bladder',
(int) 13 => 'Brain',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Heart',
(int) 17 => 'Kidney',
(int) 18 => 'Liver',
(int) 19 => 'Lung',
(int) 20 => 'Muscle',
(int) 21 => 'Ovary',
(int) 22 => 'Placenta',
(int) 23 => 'Testis',
(int) 24 => 'Adipose',
(int) 25 => 'Adrenal',
(int) 26 => 'Brain',
(int) 27 => 'Breast',
(int) 28 => 'Colon',
(int) 29 => 'Kidney',
(int) 30 => 'Lung',
(int) 31 => 'Muscle',
(int) 32 => 'Ovary',
(int) 33 => 'Placenta',
(int) 34 => 'Testis',
(int) 35 => 'Breast',
(int) 36 => 'Brain',
(int) 37 => 'Kidney',
(int) 38 => 'Ovary',
(int) 39 => 'Placenta',
(int) 40 => 'Testis',
(int) 41 => 'Breast',
(int) 42 => 'Colon',
(int) 43 => 'Muscle',
(int) 44 => 'Ovary',
(int) 45 => 'Placenta',
(int) 46 => 'Testis',
(int) 47 => 'Breast',
(int) 48 => 'Heart',
(int) 49 => 'Breast'
)
)
)
$gene_desc_arr = array(
'ENSG00000124391' => 'interleukin 17C',
'ENSG00000158545' => 'zinc finger CCCH-type containing 18',
'ENSMUSG00000017478' => 'zinc finger CCCH-type containing 18',
'ENSMUSG00000046108' => 'interleukin 17C'
)
$gene_name_arr = array(
'ENSG00000124391' => 'IL17C',
'ENSG00000158545' => 'ZC3H18',
'ENSMUSG00000017478' => 'Zc3h18',
'ENSMUSG00000046108' => 'Il17c'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0006XT_0001',
'tax_id' => '9606',
'chromosome' => '16',
'seq_start' => '88570381',
'seq_end' => '88640473',
'region_length' => '70092',
'region_type' => 'CGP',
'el_id' => 'ENSG00000158545-ENSG00000124391'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0006XT_0002',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '122376609',
'seq_end' => '122423639',
'region_length' => '47030',
'region_type' => 'CGP',
'el_id' => 'ENSMUSG00000017478-ENSMUSG00000046108'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 7 => 'Bladder',
(int) 8 => 'Brain',
(int) 11 => 'Breast',
(int) 17 => 'Colon',
(int) 20 => 'Heart',
(int) 23 => 'Kidney',
(int) 26 => 'Liver',
(int) 27 => 'Lung',
(int) 30 => 'Muscle',
(int) 33 => 'Ovary',
(int) 39 => 'Placenta',
(int) 44 => '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) 25
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000244241' => array(
'start' => '88638593',
'end' => '88640473',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'IL17C-001'
),
'ENST00000569133' => array(
'start' => '88638591',
'end' => '88640122',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'IL17C-002'
),
'ENST00000301011' => array(
'start' => '88570381',
'end' => '88631966',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-001'
),
'ENST00000452588' => array(
'start' => '88570403',
'end' => '88631398',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-002'
),
'ENST00000563382' => array(
'start' => '88624688',
'end' => '88625684',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-010'
),
'ENST00000564161' => array(
'start' => '88608517',
'end' => '88626699',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-004'
),
'ENST00000564341' => array(
'start' => '88624043',
'end' => '88631847',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-014'
),
'ENST00000565583' => array(
'start' => '88627922',
'end' => '88631930',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-013'
),
'ENST00000566317' => array(
'start' => '88628648',
'end' => '88631424',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-011'
),
'ENST00000566496' => array(
'start' => '88627062',
'end' => '88631934',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-005'
),
'ENST00000566660' => array(
'start' => '88630155',
'end' => '88631256',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-012'
),
'ENST00000567085' => array(
'start' => '88586617',
'end' => '88623270',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-009'
),
'ENST00000568072' => array(
'start' => '88599836',
'end' => '88609264',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-008'
),
'ENST00000569435' => array(
'start' => '88570478',
'end' => '88599802',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-007'
),
'ENSMUST00000017622' => array(
'start' => '122376609',
'end' => '122417359',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-001'
),
'ENSMUST00000093073' => array(
'start' => '122376643',
'end' => '122417360',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-002'
),
'ENSMUST00000175798' => array(
'start' => '122408018',
'end' => '122410904',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Zc3h18-010'
),
'ENSMUST00000175819' => array(
'start' => '122403340',
'end' => '122411403',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-008'
),
'ENSMUST00000176629' => array(
'start' => '122376681',
'end' => '122417359',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-005'
),
'ENSMUST00000176699' => array(
'start' => '122376644',
'end' => '122383725',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-007'
),
'ENSMUST00000177049' => array(
'start' => '122411325',
'end' => '122416248',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-009'
),
'ENSMUST00000177123' => array(
'start' => '122407843',
'end' => '122417359',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Zc3h18-004'
),
'ENSMUST00000177195' => array(
'start' => '122403270',
'end' => '122406127',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Zc3h18-011'
),
'ENSMUST00000177386' => array(
'start' => '122376648',
'end' => '122389744',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Zc3h18-003'
),
'ENSMUST00000050963' => array(
'start' => '122422020',
'end' => '122423639',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Il17c-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_0006XT_0001' => array(
'genes_in_region' => array(
'ENSG00000124391' => array(
[maximum depth reached]
),
'ENSG00000158545' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Heart',
(int) 3 => 'Lung',
(int) 4 => 'Ovary',
(int) 5 => 'Placenta',
(int) 6 => 'Testis',
(int) 7 => 'Adrenal',
(int) 8 => 'Ovary',
(int) 9 => 'Testis',
(int) 10 => 'Adipose',
(int) 11 => 'Adrenal',
(int) 12 => 'Bladder',
(int) 13 => 'Brain',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Heart',
(int) 17 => 'Kidney',
(int) 18 => 'Liver',
(int) 19 => 'Lung',
(int) 20 => 'Muscle',
(int) 21 => 'Ovary',
(int) 22 => 'Placenta',
(int) 23 => 'Testis',
(int) 24 => 'Adipose',
(int) 25 => 'Adrenal',
(int) 26 => 'Brain',
(int) 27 => 'Breast',
(int) 28 => 'Colon',
(int) 29 => 'Kidney',
(int) 30 => 'Lung',
(int) 31 => 'Muscle',
(int) 32 => 'Ovary',
(int) 33 => 'Placenta',
(int) 34 => 'Testis',
(int) 35 => 'Breast',
(int) 36 => 'Brain',
(int) 37 => 'Kidney',
(int) 38 => 'Ovary',
(int) 39 => 'Placenta',
(int) 40 => 'Testis',
(int) 41 => 'Breast',
(int) 42 => 'Colon',
(int) 43 => 'Muscle',
(int) 44 => 'Ovary',
(int) 45 => 'Placenta',
(int) 46 => 'Testis',
(int) 47 => 'Breast',
(int) 48 => 'Heart',
(int) 49 => 'Breast'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0006XT_0002',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '122376609',
'seq_end' => '122423639',
'region_length' => '47030',
'region_type' => 'CGP',
'el_id' => 'ENSMUSG00000017478-ENSMUSG00000046108'
)
)
$gene_el = array(
'ENST00000301011' => array(
'Adipose' => array(
'average_FPKM' => '7.328',
'stddev_FPKM' => '0.00'
),
'Adrenal' => array(
'average_FPKM' => '6.002',
'stddev_FPKM' => '0.00'
),
'Bladder' => array(
'average_FPKM' => '0.307',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '3.111',
'stddev_FPKM' => '2.72'
),
'Breast' => array(
'average_FPKM' => '2.708',
'stddev_FPKM' => '2.45'
),
'Colon' => array(
'average_FPKM' => '8.918',
'stddev_FPKM' => '0.00'
),
'Heart' => array(
'average_FPKM' => '2.908',
'stddev_FPKM' => '2.57'
),
'Kidney' => array(
'average_FPKM' => '4.331',
'stddev_FPKM' => '3.16'
),
'Liver' => array(
'average_FPKM' => '3.607',
'stddev_FPKM' => '1.24'
),
'Lung' => array(
'average_FPKM' => '4.094',
'stddev_FPKM' => '3.62'
),
'Muscle' => array(
'average_FPKM' => '9.211',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '9.037',
'stddev_FPKM' => '7.38'
),
'Placenta' => array(
'average_FPKM' => '12.236',
'stddev_FPKM' => '3.07'
),
'Testis' => array(
'average_FPKM' => '14.302',
'stddev_FPKM' => '0.00'
)
),
'ENST00000452588' => array(
'Adipose' => array(
'average_FPKM' => '5.076',
'stddev_FPKM' => '0.00'
),
'Adrenal' => array(
'average_FPKM' => '4.081',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '4.619',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '5.281',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '2.510',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '2.881',
'stddev_FPKM' => '0.00'
),
'Lung' => array(
'average_FPKM' => '4.013',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '2.850',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '3.962',
'stddev_FPKM' => '2.41'
),
'Placenta' => array(
'average_FPKM' => '5.416',
'stddev_FPKM' => '2.73'
),
'Testis' => array(
'average_FPKM' => '10.939',
'stddev_FPKM' => '1.08'
)
),
'ENST00000563382' => array(),
'ENST00000564161' => array(
'Breast' => array(
'average_FPKM' => '0.286',
'stddev_FPKM' => '0.00'
)
),
'ENST00000564341' => array(),
'ENST00000565583' => array(
'Brain' => array(
'average_FPKM' => '1.165',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '1.622',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '9.629',
'stddev_FPKM' => '1.39'
),
'Placenta' => array(
'average_FPKM' => '12.050',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '23.447',
'stddev_FPKM' => '0.00'
)
),
'ENST00000566317' => array(),
'ENST00000566496' => array(
'Breast' => array(
'average_FPKM' => '0.415',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '0.544',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.777',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '5.076',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '5.931',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '11.718',
'stddev_FPKM' => '0.00'
)
),
'ENST00000566660' => array(),
'ENST00000567085' => array(
'Breast' => array(
'average_FPKM' => '1.080',
'stddev_FPKM' => '0.00'
),
'Heart' => array(
'average_FPKM' => '0.486',
'stddev_FPKM' => '0.00'
)
),
'ENST00000568072' => array(),
'ENST00000569435' => array(
'Breast' => array(
'average_FPKM' => '1.081',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSG00000158545'
$is_first = false
$tran_el = array(
'Breast' => array(
'average_FPKM' => '1.081',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENST00000569435'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_0006XT_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000124391' => 'interleukin 17C',
'ENSG00000158545' => 'zinc finger CCCH-type containing 18',
'ENSMUSG00000017478' => 'zinc finger CCCH-type containing 18',
'ENSMUSG00000046108' => 'interleukin 17C'
),
'gene_name_arr' => array(
'ENSG00000124391' => 'IL17C',
'ENSG00000158545' => 'ZC3H18',
'ENSMUSG00000017478' => 'Zc3h18',
'ENSMUSG00000046108' => 'Il17c'
),
'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) 7 => 'Bladder',
(int) 8 => 'Brain',
(int) 11 => 'Breast',
(int) 17 => 'Colon',
(int) 20 => 'Heart',
(int) 23 => 'Kidney',
(int) 26 => 'Liver',
(int) 27 => 'Lung',
(int) 30 => 'Muscle',
(int) 33 => 'Ovary',
(int) 39 => 'Placenta',
(int) 44 => '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) 25,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000244241' => array(
'start' => '88638593',
'end' => '88640473',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'IL17C-001'
),
'ENST00000569133' => array(
'start' => '88638591',
'end' => '88640122',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'IL17C-002'
),
'ENST00000301011' => array(
'start' => '88570381',
'end' => '88631966',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-001'
),
'ENST00000452588' => array(
'start' => '88570403',
'end' => '88631398',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-002'
),
'ENST00000563382' => array(
'start' => '88624688',
'end' => '88625684',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-010'
),
'ENST00000564161' => array(
'start' => '88608517',
'end' => '88626699',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-004'
),
'ENST00000564341' => array(
'start' => '88624043',
'end' => '88631847',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-014'
),
'ENST00000565583' => array(
'start' => '88627922',
'end' => '88631930',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-013'
),
'ENST00000566317' => array(
'start' => '88628648',
'end' => '88631424',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-011'
),
'ENST00000566496' => array(
'start' => '88627062',
'end' => '88631934',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-005'
),
'ENST00000566660' => array(
'start' => '88630155',
'end' => '88631256',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-012'
),
'ENST00000567085' => array(
'start' => '88586617',
'end' => '88623270',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-009'
),
'ENST00000568072' => array(
'start' => '88599836',
'end' => '88609264',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-008'
),
'ENST00000569435' => array(
'start' => '88570478',
'end' => '88599802',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-007'
),
'ENSMUST00000017622' => array(
'start' => '122376609',
'end' => '122417359',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-001'
),
'ENSMUST00000093073' => array(
'start' => '122376643',
'end' => '122417360',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-002'
),
'ENSMUST00000175798' => array(
'start' => '122408018',
'end' => '122410904',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Zc3h18-010'
),
'ENSMUST00000175819' => array(
'start' => '122403340',
'end' => '122411403',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-008'
),
'ENSMUST00000176629' => array(
'start' => '122376681',
'end' => '122417359',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-005'
),
'ENSMUST00000176699' => array(
'start' => '122376644',
'end' => '122383725',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-007'
),
'ENSMUST00000177049' => array(
'start' => '122411325',
'end' => '122416248',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-009'
),
'ENSMUST00000177123' => array(
'start' => '122407843',
'end' => '122417359',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Zc3h18-004'
),
'ENSMUST00000177195' => array(
'start' => '122403270',
'end' => '122406127',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Zc3h18-011'
),
'ENSMUST00000177386' => array(
'start' => '122376648',
'end' => '122389744',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Zc3h18-003'
),
'ENSMUST00000050963' => array(
'start' => '122422020',
'end' => '122423639',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Il17c-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_0006XT_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0006XT_0001' => array(
'genes_in_region' => array(
'ENSG00000124391' => array(
[maximum depth reached]
),
'ENSG00000158545' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Heart',
(int) 3 => 'Lung',
(int) 4 => 'Ovary',
(int) 5 => 'Placenta',
(int) 6 => 'Testis',
(int) 7 => 'Adrenal',
(int) 8 => 'Ovary',
(int) 9 => 'Testis',
(int) 10 => 'Adipose',
(int) 11 => 'Adrenal',
(int) 12 => 'Bladder',
(int) 13 => 'Brain',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Heart',
(int) 17 => 'Kidney',
(int) 18 => 'Liver',
(int) 19 => 'Lung',
(int) 20 => 'Muscle',
(int) 21 => 'Ovary',
(int) 22 => 'Placenta',
(int) 23 => 'Testis',
(int) 24 => 'Adipose',
(int) 25 => 'Adrenal',
(int) 26 => 'Brain',
(int) 27 => 'Breast',
(int) 28 => 'Colon',
(int) 29 => 'Kidney',
(int) 30 => 'Lung',
(int) 31 => 'Muscle',
(int) 32 => 'Ovary',
(int) 33 => 'Placenta',
(int) 34 => 'Testis',
(int) 35 => 'Breast',
(int) 36 => 'Brain',
(int) 37 => 'Kidney',
(int) 38 => 'Ovary',
(int) 39 => 'Placenta',
(int) 40 => 'Testis',
(int) 41 => 'Breast',
(int) 42 => 'Colon',
(int) 43 => 'Muscle',
(int) 44 => 'Ovary',
(int) 45 => 'Placenta',
(int) 46 => 'Testis',
(int) 47 => 'Breast',
(int) 48 => 'Heart',
(int) 49 => 'Breast'
)
)
)
$gene_desc_arr = array(
'ENSG00000124391' => 'interleukin 17C',
'ENSG00000158545' => 'zinc finger CCCH-type containing 18',
'ENSMUSG00000017478' => 'zinc finger CCCH-type containing 18',
'ENSMUSG00000046108' => 'interleukin 17C'
)
$gene_name_arr = array(
'ENSG00000124391' => 'IL17C',
'ENSG00000158545' => 'ZC3H18',
'ENSMUSG00000017478' => 'Zc3h18',
'ENSMUSG00000046108' => 'Il17c'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0006XT_0001',
'tax_id' => '9606',
'chromosome' => '16',
'seq_start' => '88570381',
'seq_end' => '88640473',
'region_length' => '70092',
'region_type' => 'CGP',
'el_id' => 'ENSG00000158545-ENSG00000124391'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0006XT_0002',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '122376609',
'seq_end' => '122423639',
'region_length' => '47030',
'region_type' => 'CGP',
'el_id' => 'ENSMUSG00000017478-ENSMUSG00000046108'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 7 => 'Bladder',
(int) 8 => 'Brain',
(int) 11 => 'Breast',
(int) 17 => 'Colon',
(int) 20 => 'Heart',
(int) 23 => 'Kidney',
(int) 26 => 'Liver',
(int) 27 => 'Lung',
(int) 30 => 'Muscle',
(int) 33 => 'Ovary',
(int) 39 => 'Placenta',
(int) 44 => '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) 25
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000244241' => array(
'start' => '88638593',
'end' => '88640473',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'IL17C-001'
),
'ENST00000569133' => array(
'start' => '88638591',
'end' => '88640122',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'IL17C-002'
),
'ENST00000301011' => array(
'start' => '88570381',
'end' => '88631966',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-001'
),
'ENST00000452588' => array(
'start' => '88570403',
'end' => '88631398',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-002'
),
'ENST00000563382' => array(
'start' => '88624688',
'end' => '88625684',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-010'
),
'ENST00000564161' => array(
'start' => '88608517',
'end' => '88626699',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-004'
),
'ENST00000564341' => array(
'start' => '88624043',
'end' => '88631847',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-014'
),
'ENST00000565583' => array(
'start' => '88627922',
'end' => '88631930',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-013'
),
'ENST00000566317' => array(
'start' => '88628648',
'end' => '88631424',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-011'
),
'ENST00000566496' => array(
'start' => '88627062',
'end' => '88631934',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-005'
),
'ENST00000566660' => array(
'start' => '88630155',
'end' => '88631256',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-012'
),
'ENST00000567085' => array(
'start' => '88586617',
'end' => '88623270',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-009'
),
'ENST00000568072' => array(
'start' => '88599836',
'end' => '88609264',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'ZC3H18-008'
),
'ENST00000569435' => array(
'start' => '88570478',
'end' => '88599802',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'ZC3H18-007'
),
'ENSMUST00000017622' => array(
'start' => '122376609',
'end' => '122417359',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-001'
),
'ENSMUST00000093073' => array(
'start' => '122376643',
'end' => '122417360',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-002'
),
'ENSMUST00000175798' => array(
'start' => '122408018',
'end' => '122410904',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Zc3h18-010'
),
'ENSMUST00000175819' => array(
'start' => '122403340',
'end' => '122411403',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-008'
),
'ENSMUST00000176629' => array(
'start' => '122376681',
'end' => '122417359',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-005'
),
'ENSMUST00000176699' => array(
'start' => '122376644',
'end' => '122383725',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-007'
),
'ENSMUST00000177049' => array(
'start' => '122411325',
'end' => '122416248',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Zc3h18-009'
),
'ENSMUST00000177123' => array(
'start' => '122407843',
'end' => '122417359',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Zc3h18-004'
),
'ENSMUST00000177195' => array(
'start' => '122403270',
'end' => '122406127',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'Zc3h18-011'
),
'ENSMUST00000177386' => array(
'start' => '122376648',
'end' => '122389744',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'Zc3h18-003'
),
'ENSMUST00000050963' => array(
'start' => '122422020',
'end' => '122423639',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'Il17c-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_0006XT_0001' => array(
'genes_in_region' => array(
'ENSG00000124391' => array(
[maximum depth reached]
),
'ENSG00000158545' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Adipose',
(int) 1 => 'Adrenal',
(int) 2 => 'Heart',
(int) 3 => 'Lung',
(int) 4 => 'Ovary',
(int) 5 => 'Placenta',
(int) 6 => 'Testis',
(int) 7 => 'Adrenal',
(int) 8 => 'Ovary',
(int) 9 => 'Testis',
(int) 10 => 'Adipose',
(int) 11 => 'Adrenal',
(int) 12 => 'Bladder',
(int) 13 => 'Brain',
(int) 14 => 'Breast',
(int) 15 => 'Colon',
(int) 16 => 'Heart',
(int) 17 => 'Kidney',
(int) 18 => 'Liver',
(int) 19 => 'Lung',
(int) 20 => 'Muscle',
(int) 21 => 'Ovary',
(int) 22 => 'Placenta',
(int) 23 => 'Testis',
(int) 24 => 'Adipose',
(int) 25 => 'Adrenal',
(int) 26 => 'Brain',
(int) 27 => 'Breast',
(int) 28 => 'Colon',
(int) 29 => 'Kidney',
(int) 30 => 'Lung',
(int) 31 => 'Muscle',
(int) 32 => 'Ovary',
(int) 33 => 'Placenta',
(int) 34 => 'Testis',
(int) 35 => 'Breast',
(int) 36 => 'Brain',
(int) 37 => 'Kidney',
(int) 38 => 'Ovary',
(int) 39 => 'Placenta',
(int) 40 => 'Testis',
(int) 41 => 'Breast',
(int) 42 => 'Colon',
(int) 43 => 'Muscle',
(int) 44 => 'Ovary',
(int) 45 => 'Placenta',
(int) 46 => 'Testis',
(int) 47 => 'Breast',
(int) 48 => 'Heart',
(int) 49 => 'Breast'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0006XT_0002',
'tax_id' => '10090',
'chromosome' => '8',
'seq_start' => '122376609',
'seq_end' => '122423639',
'region_length' => '47030',
'region_type' => 'CGP',
'el_id' => 'ENSMUSG00000017478-ENSMUSG00000046108'
)
)
$gene_el = array(
'ENST00000301011' => array(
'Adipose' => array(
'average_FPKM' => '7.328',
'stddev_FPKM' => '0.00'
),
'Adrenal' => array(
'average_FPKM' => '6.002',
'stddev_FPKM' => '0.00'
),
'Bladder' => array(
'average_FPKM' => '0.307',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '3.111',
'stddev_FPKM' => '2.72'
),
'Breast' => array(
'average_FPKM' => '2.708',
'stddev_FPKM' => '2.45'
),
'Colon' => array(
'average_FPKM' => '8.918',
'stddev_FPKM' => '0.00'
),
'Heart' => array(
'average_FPKM' => '2.908',
'stddev_FPKM' => '2.57'
),
'Kidney' => array(
'average_FPKM' => '4.331',
'stddev_FPKM' => '3.16'
),
'Liver' => array(
'average_FPKM' => '3.607',
'stddev_FPKM' => '1.24'
),
'Lung' => array(
'average_FPKM' => '4.094',
'stddev_FPKM' => '3.62'
),
'Muscle' => array(
'average_FPKM' => '9.211',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '9.037',
'stddev_FPKM' => '7.38'
),
'Placenta' => array(
'average_FPKM' => '12.236',
'stddev_FPKM' => '3.07'
),
'Testis' => array(
'average_FPKM' => '14.302',
'stddev_FPKM' => '0.00'
)
),
'ENST00000452588' => array(
'Adipose' => array(
'average_FPKM' => '5.076',
'stddev_FPKM' => '0.00'
),
'Adrenal' => array(
'average_FPKM' => '4.081',
'stddev_FPKM' => '0.00'
),
'Brain' => array(
'average_FPKM' => '4.619',
'stddev_FPKM' => '0.00'
),
'Breast' => array(
'average_FPKM' => '5.281',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '2.510',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '2.881',
'stddev_FPKM' => '0.00'
),
'Lung' => array(
'average_FPKM' => '4.013',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '2.850',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '3.962',
'stddev_FPKM' => '2.41'
),
'Placenta' => array(
'average_FPKM' => '5.416',
'stddev_FPKM' => '2.73'
),
'Testis' => array(
'average_FPKM' => '10.939',
'stddev_FPKM' => '1.08'
)
),
'ENST00000563382' => array(),
'ENST00000564161' => array(
'Breast' => array(
'average_FPKM' => '0.286',
'stddev_FPKM' => '0.00'
)
),
'ENST00000564341' => array(),
'ENST00000565583' => array(
'Brain' => array(
'average_FPKM' => '1.165',
'stddev_FPKM' => '0.00'
),
'Kidney' => array(
'average_FPKM' => '1.622',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '9.629',
'stddev_FPKM' => '1.39'
),
'Placenta' => array(
'average_FPKM' => '12.050',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '23.447',
'stddev_FPKM' => '0.00'
)
),
'ENST00000566317' => array(),
'ENST00000566496' => array(
'Breast' => array(
'average_FPKM' => '0.415',
'stddev_FPKM' => '0.00'
),
'Colon' => array(
'average_FPKM' => '0.544',
'stddev_FPKM' => '0.00'
),
'Muscle' => array(
'average_FPKM' => '0.777',
'stddev_FPKM' => '0.00'
),
'Ovary' => array(
'average_FPKM' => '5.076',
'stddev_FPKM' => '0.00'
),
'Placenta' => array(
'average_FPKM' => '5.931',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '11.718',
'stddev_FPKM' => '0.00'
)
),
'ENST00000566660' => array(),
'ENST00000567085' => array(
'Breast' => array(
'average_FPKM' => '1.080',
'stddev_FPKM' => '0.00'
),
'Heart' => array(
'average_FPKM' => '0.486',
'stddev_FPKM' => '0.00'
)
),
'ENST00000568072' => array(),
'ENST00000569435' => array(
'Breast' => array(
'average_FPKM' => '1.081',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSG00000158545'
$is_first = false
$tran_el = array(
'Breast' => array(
'average_FPKM' => '1.081',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENST00000569435'
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
(IL17C)