Notice (8): Undefined index: CIL_0008M5_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_0008M5_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000184304' => 'protein kinase D1',
'ENSG00000240201' => null,
'ENSG00000248975' => null,
'ENSG00000257636' => null,
'ENSG00000257904' => null,
'ENSG00000258350' => 'SYF2 pre-mRNA-splicing factor pseudogene 1',
'ENSG00000278587' => 'TUC338',
'ENSG00000279032' => null,
'ENSMUSG00000088966' => 'predicted gene, 22088'
),
'gene_name_arr' => array(
'ENSG00000184304' => 'PRKD1',
'ENSG00000240201' => 'RP11-269C4.1',
'ENSG00000248975' => 'CTD-2251F13.1',
'ENSG00000257636' => 'RP11-1103G16.1',
'ENSG00000257904' => 'RP11-269C4.2',
'ENSG00000258350' => 'SYF2P1',
'ENSG00000278587' => 'uc_338',
'ENSG00000279032' => 'RP11-306B9.1',
'ENSMUSG00000088966' => 'Gm22088'
),
'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) 5 => 'Brain',
(int) 8 => 'Breast',
(int) 12 => 'Colon',
(int) 16 => 'Heart',
(int) 21 => 'Kidney',
(int) 27 => 'Liver',
(int) 30 => 'Lung',
(int) 34 => 'Muscle',
(int) 37 => 'Ovary',
(int) 43 => 'Placenta',
(int) 49 => '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) 23,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000331968' => array(
'start' => '29576481',
'end' => '29927742',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-001'
),
'ENST00000415220' => array(
'start' => '29576942',
'end' => '29927642',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-002'
),
'ENST00000468370' => array(
'start' => '29638296',
'end' => '29666158',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PRKD1-003'
),
'ENST00000490795' => array(
'start' => '29591115',
'end' => '29597668',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PRKD1-004'
),
'ENST00000546371' => array(
'start' => '29630572',
'end' => '29634474',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-007'
),
'ENST00000547441' => array(
'start' => '29638523',
'end' => '29657844',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PRKD1-005'
),
'ENST00000549503' => array(
'start' => '29663812',
'end' => '30191898',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-008'
),
'ENST00000551644' => array(
'start' => '29636443',
'end' => '29650520',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PRKD1-006'
),
'ENST00000616995' => array(
'start' => '29576479',
'end' => '29927512',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-201'
),
'ENST00000621126' => array(
'start' => '29576479',
'end' => '29725678',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-202'
),
'ENST00000493565' => array(
'start' => '30055210',
'end' => '30055954',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP11-269C4.1-001'
),
'ENST00000508469' => array(
'start' => '30167834',
'end' => '30297043',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2251F13.1-001'
),
'ENST00000548124' => array(
'start' => '29952397',
'end' => '29980254',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2251F13.1-003'
),
'ENST00000549360' => array(
'start' => '29972669',
'end' => '30297017',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2251F13.1-002'
),
'ENST00000548631' => array(
'start' => '30450360',
'end' => '30474070',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-1103G16.1-001'
),
'ENST00000550118' => array(
'start' => '30469176',
'end' => '30503271',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-1103G16.1-003'
),
'ENST00000550680' => array(
'start' => '30438006',
'end' => '30474227',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-1103G16.1-002'
),
'ENST00000552511' => array(
'start' => '30437992',
'end' => '30573629',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-1103G16.1-004'
),
'ENST00000553082' => array(
'start' => '29940745',
'end' => '29980212',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-269C4.2-001'
),
'ENST00000550658' => array(
'start' => '30541776',
'end' => '30542188',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'SYF2P1-001'
),
'ENST00000622331' => array(
'start' => '30519161',
'end' => '30519318',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'uc_338.1-235'
),
'ENST00000623159' => array(
'start' => '30370108',
'end' => '30373115',
'transcript_biotype' => 'TEC',
'transcript_name' => 'RP11-306B9.1-001'
),
'ENSMUST00000158341' => array(
'start' => '51085687',
'end' => '51085803',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm22088-201'
)
),
'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_0008M5_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0008M5_0001' => array(
'genes_in_region' => array(
'ENSG00000184304' => array(
[maximum depth reached]
),
'ENSG00000240201' => array(
[maximum depth reached]
),
'ENSG00000248975' => array(
[maximum depth reached]
),
'ENSG00000257904' => array(
[maximum depth reached]
),
'ENSG00000258350' => array(
[maximum depth reached]
),
'ENSG00000279032' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Breast',
(int) 1 => 'Colon',
(int) 2 => 'Heart',
(int) 3 => 'Kidney',
(int) 4 => 'Lung',
(int) 5 => 'Muscle',
(int) 6 => 'Ovary',
(int) 7 => 'Placenta',
(int) 8 => 'Adipose',
(int) 9 => 'Brain',
(int) 10 => 'Heart',
(int) 11 => 'Liver',
(int) 12 => 'Lung',
(int) 13 => 'Ovary',
(int) 14 => 'Placenta',
(int) 15 => 'Testis',
(int) 16 => 'Ovary',
(int) 17 => 'Kidney',
(int) 18 => 'Muscle',
(int) 19 => 'Adipose',
(int) 20 => 'Breast',
(int) 21 => 'Colon',
(int) 22 => 'Heart',
(int) 23 => 'Kidney',
(int) 24 => 'Liver',
(int) 25 => 'Ovary',
(int) 26 => 'Placenta',
(int) 27 => 'Testis',
(int) 28 => 'Adrenal',
(int) 29 => 'Brain',
(int) 30 => 'Colon',
(int) 31 => 'Kidney',
(int) 32 => 'Lung',
(int) 33 => 'Muscle',
(int) 34 => 'Ovary',
(int) 35 => 'Placenta',
(int) 36 => 'Testis',
(int) 37 => 'Breast',
(int) 38 => 'Heart',
(int) 39 => 'Kidney',
(int) 40 => 'Testis',
(int) 41 => 'Adipose',
(int) 42 => 'Adrenal',
(int) 43 => 'Brain',
(int) 44 => 'Breast',
(int) 45 => 'Colon',
(int) 46 => 'Heart',
(int) 47 => 'Kidney',
(int) 48 => 'Liver',
(int) 49 => 'Lung',
(int) 50 => 'Ovary',
(int) 51 => 'Testis',
(int) 52 => 'Placenta',
(int) 53 => 'Testis',
(int) 54 => 'Testis',
(int) 55 => 'Placenta',
(int) 56 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSG00000184304' => 'protein kinase D1',
'ENSG00000240201' => null,
'ENSG00000248975' => null,
'ENSG00000257636' => null,
'ENSG00000257904' => null,
'ENSG00000258350' => 'SYF2 pre-mRNA-splicing factor pseudogene 1',
'ENSG00000278587' => 'TUC338',
'ENSG00000279032' => null,
'ENSMUSG00000088966' => 'predicted gene, 22088'
)
$gene_name_arr = array(
'ENSG00000184304' => 'PRKD1',
'ENSG00000240201' => 'RP11-269C4.1',
'ENSG00000248975' => 'CTD-2251F13.1',
'ENSG00000257636' => 'RP11-1103G16.1',
'ENSG00000257904' => 'RP11-269C4.2',
'ENSG00000258350' => 'SYF2P1',
'ENSG00000278587' => 'uc_338',
'ENSG00000279032' => 'RP11-306B9.1',
'ENSMUSG00000088966' => 'Gm22088'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0008M5_0001',
'tax_id' => '9606',
'chromosome' => '14',
'seq_start' => '29942819',
'seq_end' => '30544130',
'region_length' => '601311',
'region_type' => 'VISTA',
'el_id' => 'hs343'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0008M5_0002',
'tax_id' => '10090',
'chromosome' => '12',
'seq_start' => '50670036',
'seq_end' => '51271348',
'region_length' => '601312',
'region_type' => 'VISTA',
'el_id' => 'hs343'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 5 => 'Brain',
(int) 8 => 'Breast',
(int) 12 => 'Colon',
(int) 16 => 'Heart',
(int) 21 => 'Kidney',
(int) 27 => 'Liver',
(int) 30 => 'Lung',
(int) 34 => 'Muscle',
(int) 37 => 'Ovary',
(int) 43 => 'Placenta',
(int) 49 => '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) 23
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000331968' => array(
'start' => '29576481',
'end' => '29927742',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-001'
),
'ENST00000415220' => array(
'start' => '29576942',
'end' => '29927642',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-002'
),
'ENST00000468370' => array(
'start' => '29638296',
'end' => '29666158',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PRKD1-003'
),
'ENST00000490795' => array(
'start' => '29591115',
'end' => '29597668',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PRKD1-004'
),
'ENST00000546371' => array(
'start' => '29630572',
'end' => '29634474',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-007'
),
'ENST00000547441' => array(
'start' => '29638523',
'end' => '29657844',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PRKD1-005'
),
'ENST00000549503' => array(
'start' => '29663812',
'end' => '30191898',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-008'
),
'ENST00000551644' => array(
'start' => '29636443',
'end' => '29650520',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PRKD1-006'
),
'ENST00000616995' => array(
'start' => '29576479',
'end' => '29927512',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-201'
),
'ENST00000621126' => array(
'start' => '29576479',
'end' => '29725678',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-202'
),
'ENST00000493565' => array(
'start' => '30055210',
'end' => '30055954',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP11-269C4.1-001'
),
'ENST00000508469' => array(
'start' => '30167834',
'end' => '30297043',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2251F13.1-001'
),
'ENST00000548124' => array(
'start' => '29952397',
'end' => '29980254',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2251F13.1-003'
),
'ENST00000549360' => array(
'start' => '29972669',
'end' => '30297017',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2251F13.1-002'
),
'ENST00000548631' => array(
'start' => '30450360',
'end' => '30474070',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-1103G16.1-001'
),
'ENST00000550118' => array(
'start' => '30469176',
'end' => '30503271',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-1103G16.1-003'
),
'ENST00000550680' => array(
'start' => '30438006',
'end' => '30474227',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-1103G16.1-002'
),
'ENST00000552511' => array(
'start' => '30437992',
'end' => '30573629',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-1103G16.1-004'
),
'ENST00000553082' => array(
'start' => '29940745',
'end' => '29980212',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-269C4.2-001'
),
'ENST00000550658' => array(
'start' => '30541776',
'end' => '30542188',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'SYF2P1-001'
),
'ENST00000622331' => array(
'start' => '30519161',
'end' => '30519318',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'uc_338.1-235'
),
'ENST00000623159' => array(
'start' => '30370108',
'end' => '30373115',
'transcript_biotype' => 'TEC',
'transcript_name' => 'RP11-306B9.1-001'
),
'ENSMUST00000158341' => array(
'start' => '51085687',
'end' => '51085803',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm22088-201'
)
)
$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_0008M5_0001' => array(
'genes_in_region' => array(
'ENSG00000184304' => array(
[maximum depth reached]
),
'ENSG00000240201' => array(
[maximum depth reached]
),
'ENSG00000248975' => array(
[maximum depth reached]
),
'ENSG00000257904' => array(
[maximum depth reached]
),
'ENSG00000258350' => array(
[maximum depth reached]
),
'ENSG00000279032' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Breast',
(int) 1 => 'Colon',
(int) 2 => 'Heart',
(int) 3 => 'Kidney',
(int) 4 => 'Lung',
(int) 5 => 'Muscle',
(int) 6 => 'Ovary',
(int) 7 => 'Placenta',
(int) 8 => 'Adipose',
(int) 9 => 'Brain',
(int) 10 => 'Heart',
(int) 11 => 'Liver',
(int) 12 => 'Lung',
(int) 13 => 'Ovary',
(int) 14 => 'Placenta',
(int) 15 => 'Testis',
(int) 16 => 'Ovary',
(int) 17 => 'Kidney',
(int) 18 => 'Muscle',
(int) 19 => 'Adipose',
(int) 20 => 'Breast',
(int) 21 => 'Colon',
(int) 22 => 'Heart',
(int) 23 => 'Kidney',
(int) 24 => 'Liver',
(int) 25 => 'Ovary',
(int) 26 => 'Placenta',
(int) 27 => 'Testis',
(int) 28 => 'Adrenal',
(int) 29 => 'Brain',
(int) 30 => 'Colon',
(int) 31 => 'Kidney',
(int) 32 => 'Lung',
(int) 33 => 'Muscle',
(int) 34 => 'Ovary',
(int) 35 => 'Placenta',
(int) 36 => 'Testis',
(int) 37 => 'Breast',
(int) 38 => 'Heart',
(int) 39 => 'Kidney',
(int) 40 => 'Testis',
(int) 41 => 'Adipose',
(int) 42 => 'Adrenal',
(int) 43 => 'Brain',
(int) 44 => 'Breast',
(int) 45 => 'Colon',
(int) 46 => 'Heart',
(int) 47 => 'Kidney',
(int) 48 => 'Liver',
(int) 49 => 'Lung',
(int) 50 => 'Ovary',
(int) 51 => 'Testis',
(int) 52 => 'Placenta',
(int) 53 => 'Testis',
(int) 54 => 'Testis',
(int) 55 => 'Placenta',
(int) 56 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0008M5_0002',
'tax_id' => '10090',
'chromosome' => '12',
'seq_start' => '50670036',
'seq_end' => '51271348',
'region_length' => '601312',
'region_type' => 'VISTA',
'el_id' => 'hs343'
)
)
$gene_el = array(
'ENST00000623159' => array(
'Placenta' => array(
'average_FPKM' => '0.019',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.009',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSG00000279032'
$is_first = false
$tran_el = array(
'Placenta' => array(
'average_FPKM' => '0.019',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.009',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENST00000623159'
include - APP/View/Region/show.ctp, line 46
View::_evaluate() - CORE/Cake/View/View.php, line 948
View::_render() - CORE/Cake/View/View.php, line 910
View::render() - CORE/Cake/View/View.php, line 471
Controller::render() - CORE/Cake/Controller/Controller.php, line 954
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 198
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108
Warning (2): Invalid argument supplied for foreach() [APP/View/Region/show.ctp, line 46]Code Context <tr><th colspan="2">Gene</th><th>Transcript</th><th>Position</th><th>Biotype</th></tr>
<?php foreach ($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_0008M5_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
),
'gene_desc_arr' => array(
'ENSG00000184304' => 'protein kinase D1',
'ENSG00000240201' => null,
'ENSG00000248975' => null,
'ENSG00000257636' => null,
'ENSG00000257904' => null,
'ENSG00000258350' => 'SYF2 pre-mRNA-splicing factor pseudogene 1',
'ENSG00000278587' => 'TUC338',
'ENSG00000279032' => null,
'ENSMUSG00000088966' => 'predicted gene, 22088'
),
'gene_name_arr' => array(
'ENSG00000184304' => 'PRKD1',
'ENSG00000240201' => 'RP11-269C4.1',
'ENSG00000248975' => 'CTD-2251F13.1',
'ENSG00000257636' => 'RP11-1103G16.1',
'ENSG00000257904' => 'RP11-269C4.2',
'ENSG00000258350' => 'SYF2P1',
'ENSG00000278587' => 'uc_338',
'ENSG00000279032' => 'RP11-306B9.1',
'ENSMUSG00000088966' => 'Gm22088'
),
'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) 5 => 'Brain',
(int) 8 => 'Breast',
(int) 12 => 'Colon',
(int) 16 => 'Heart',
(int) 21 => 'Kidney',
(int) 27 => 'Liver',
(int) 30 => 'Lung',
(int) 34 => 'Muscle',
(int) 37 => 'Ovary',
(int) 43 => 'Placenta',
(int) 49 => '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) 23,
'longest_tissue_len' => (int) 8,
'transcript_data' => array(
'ENST00000331968' => array(
'start' => '29576481',
'end' => '29927742',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-001'
),
'ENST00000415220' => array(
'start' => '29576942',
'end' => '29927642',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-002'
),
'ENST00000468370' => array(
'start' => '29638296',
'end' => '29666158',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PRKD1-003'
),
'ENST00000490795' => array(
'start' => '29591115',
'end' => '29597668',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PRKD1-004'
),
'ENST00000546371' => array(
'start' => '29630572',
'end' => '29634474',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-007'
),
'ENST00000547441' => array(
'start' => '29638523',
'end' => '29657844',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PRKD1-005'
),
'ENST00000549503' => array(
'start' => '29663812',
'end' => '30191898',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-008'
),
'ENST00000551644' => array(
'start' => '29636443',
'end' => '29650520',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PRKD1-006'
),
'ENST00000616995' => array(
'start' => '29576479',
'end' => '29927512',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-201'
),
'ENST00000621126' => array(
'start' => '29576479',
'end' => '29725678',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-202'
),
'ENST00000493565' => array(
'start' => '30055210',
'end' => '30055954',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP11-269C4.1-001'
),
'ENST00000508469' => array(
'start' => '30167834',
'end' => '30297043',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2251F13.1-001'
),
'ENST00000548124' => array(
'start' => '29952397',
'end' => '29980254',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2251F13.1-003'
),
'ENST00000549360' => array(
'start' => '29972669',
'end' => '30297017',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2251F13.1-002'
),
'ENST00000548631' => array(
'start' => '30450360',
'end' => '30474070',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-1103G16.1-001'
),
'ENST00000550118' => array(
'start' => '30469176',
'end' => '30503271',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-1103G16.1-003'
),
'ENST00000550680' => array(
'start' => '30438006',
'end' => '30474227',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-1103G16.1-002'
),
'ENST00000552511' => array(
'start' => '30437992',
'end' => '30573629',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-1103G16.1-004'
),
'ENST00000553082' => array(
'start' => '29940745',
'end' => '29980212',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-269C4.2-001'
),
'ENST00000550658' => array(
'start' => '30541776',
'end' => '30542188',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'SYF2P1-001'
),
'ENST00000622331' => array(
'start' => '30519161',
'end' => '30519318',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'uc_338.1-235'
),
'ENST00000623159' => array(
'start' => '30370108',
'end' => '30373115',
'transcript_biotype' => 'TEC',
'transcript_name' => 'RP11-306B9.1-001'
),
'ENSMUST00000158341' => array(
'start' => '51085687',
'end' => '51085803',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm22088-201'
)
),
'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_0008M5_0001' => array(
'genes_in_region' => array(
[maximum depth reached]
),
'tissues_title' => array(
[maximum depth reached]
)
)
)
)
$region_arr = array(
'CIL_0008M5_0001' => array(
'genes_in_region' => array(
'ENSG00000184304' => array(
[maximum depth reached]
),
'ENSG00000240201' => array(
[maximum depth reached]
),
'ENSG00000248975' => array(
[maximum depth reached]
),
'ENSG00000257904' => array(
[maximum depth reached]
),
'ENSG00000258350' => array(
[maximum depth reached]
),
'ENSG00000279032' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Breast',
(int) 1 => 'Colon',
(int) 2 => 'Heart',
(int) 3 => 'Kidney',
(int) 4 => 'Lung',
(int) 5 => 'Muscle',
(int) 6 => 'Ovary',
(int) 7 => 'Placenta',
(int) 8 => 'Adipose',
(int) 9 => 'Brain',
(int) 10 => 'Heart',
(int) 11 => 'Liver',
(int) 12 => 'Lung',
(int) 13 => 'Ovary',
(int) 14 => 'Placenta',
(int) 15 => 'Testis',
(int) 16 => 'Ovary',
(int) 17 => 'Kidney',
(int) 18 => 'Muscle',
(int) 19 => 'Adipose',
(int) 20 => 'Breast',
(int) 21 => 'Colon',
(int) 22 => 'Heart',
(int) 23 => 'Kidney',
(int) 24 => 'Liver',
(int) 25 => 'Ovary',
(int) 26 => 'Placenta',
(int) 27 => 'Testis',
(int) 28 => 'Adrenal',
(int) 29 => 'Brain',
(int) 30 => 'Colon',
(int) 31 => 'Kidney',
(int) 32 => 'Lung',
(int) 33 => 'Muscle',
(int) 34 => 'Ovary',
(int) 35 => 'Placenta',
(int) 36 => 'Testis',
(int) 37 => 'Breast',
(int) 38 => 'Heart',
(int) 39 => 'Kidney',
(int) 40 => 'Testis',
(int) 41 => 'Adipose',
(int) 42 => 'Adrenal',
(int) 43 => 'Brain',
(int) 44 => 'Breast',
(int) 45 => 'Colon',
(int) 46 => 'Heart',
(int) 47 => 'Kidney',
(int) 48 => 'Liver',
(int) 49 => 'Lung',
(int) 50 => 'Ovary',
(int) 51 => 'Testis',
(int) 52 => 'Placenta',
(int) 53 => 'Testis',
(int) 54 => 'Testis',
(int) 55 => 'Placenta',
(int) 56 => 'Testis'
)
)
)
$gene_desc_arr = array(
'ENSG00000184304' => 'protein kinase D1',
'ENSG00000240201' => null,
'ENSG00000248975' => null,
'ENSG00000257636' => null,
'ENSG00000257904' => null,
'ENSG00000258350' => 'SYF2 pre-mRNA-splicing factor pseudogene 1',
'ENSG00000278587' => 'TUC338',
'ENSG00000279032' => null,
'ENSMUSG00000088966' => 'predicted gene, 22088'
)
$gene_name_arr = array(
'ENSG00000184304' => 'PRKD1',
'ENSG00000240201' => 'RP11-269C4.1',
'ENSG00000248975' => 'CTD-2251F13.1',
'ENSG00000257636' => 'RP11-1103G16.1',
'ENSG00000257904' => 'RP11-269C4.2',
'ENSG00000258350' => 'SYF2P1',
'ENSG00000278587' => 'uc_338',
'ENSG00000279032' => 'RP11-306B9.1',
'ENSMUSG00000088966' => 'Gm22088'
)
$accession_table = array(
(int) 0 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0008M5_0001',
'tax_id' => '9606',
'chromosome' => '14',
'seq_start' => '29942819',
'seq_end' => '30544130',
'region_length' => '601311',
'region_type' => 'VISTA',
'el_id' => 'hs343'
)
),
(int) 1 => array(
'region_elements' => array(
'region_element_id' => 'CIL_0008M5_0002',
'tax_id' => '10090',
'chromosome' => '12',
'seq_start' => '50670036',
'seq_end' => '51271348',
'region_length' => '601312',
'region_type' => 'VISTA',
'el_id' => 'hs343'
)
)
)
$all_tissues = array(
(int) 0 => 'Adipose',
(int) 3 => 'Adrenal',
(int) 5 => 'Brain',
(int) 8 => 'Breast',
(int) 12 => 'Colon',
(int) 16 => 'Heart',
(int) 21 => 'Kidney',
(int) 27 => 'Liver',
(int) 30 => 'Lung',
(int) 34 => 'Muscle',
(int) 37 => 'Ovary',
(int) 43 => 'Placenta',
(int) 49 => '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) 23
$longest_tissue_len = (int) 8
$transcript_data = array(
'ENST00000331968' => array(
'start' => '29576481',
'end' => '29927742',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-001'
),
'ENST00000415220' => array(
'start' => '29576942',
'end' => '29927642',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-002'
),
'ENST00000468370' => array(
'start' => '29638296',
'end' => '29666158',
'transcript_biotype' => 'retained_intron',
'transcript_name' => 'PRKD1-003'
),
'ENST00000490795' => array(
'start' => '29591115',
'end' => '29597668',
'transcript_biotype' => 'nonsense_mediated_decay',
'transcript_name' => 'PRKD1-004'
),
'ENST00000546371' => array(
'start' => '29630572',
'end' => '29634474',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-007'
),
'ENST00000547441' => array(
'start' => '29638523',
'end' => '29657844',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PRKD1-005'
),
'ENST00000549503' => array(
'start' => '29663812',
'end' => '30191898',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-008'
),
'ENST00000551644' => array(
'start' => '29636443',
'end' => '29650520',
'transcript_biotype' => 'processed_transcript',
'transcript_name' => 'PRKD1-006'
),
'ENST00000616995' => array(
'start' => '29576479',
'end' => '29927512',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-201'
),
'ENST00000621126' => array(
'start' => '29576479',
'end' => '29725678',
'transcript_biotype' => 'protein_coding',
'transcript_name' => 'PRKD1-202'
),
'ENST00000493565' => array(
'start' => '30055210',
'end' => '30055954',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'RP11-269C4.1-001'
),
'ENST00000508469' => array(
'start' => '30167834',
'end' => '30297043',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2251F13.1-001'
),
'ENST00000548124' => array(
'start' => '29952397',
'end' => '29980254',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2251F13.1-003'
),
'ENST00000549360' => array(
'start' => '29972669',
'end' => '30297017',
'transcript_biotype' => 'lincRNA',
'transcript_name' => 'CTD-2251F13.1-002'
),
'ENST00000548631' => array(
'start' => '30450360',
'end' => '30474070',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-1103G16.1-001'
),
'ENST00000550118' => array(
'start' => '30469176',
'end' => '30503271',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-1103G16.1-003'
),
'ENST00000550680' => array(
'start' => '30438006',
'end' => '30474227',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-1103G16.1-002'
),
'ENST00000552511' => array(
'start' => '30437992',
'end' => '30573629',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-1103G16.1-004'
),
'ENST00000553082' => array(
'start' => '29940745',
'end' => '29980212',
'transcript_biotype' => 'antisense',
'transcript_name' => 'RP11-269C4.2-001'
),
'ENST00000550658' => array(
'start' => '30541776',
'end' => '30542188',
'transcript_biotype' => 'processed_pseudogene',
'transcript_name' => 'SYF2P1-001'
),
'ENST00000622331' => array(
'start' => '30519161',
'end' => '30519318',
'transcript_biotype' => 'misc_RNA',
'transcript_name' => 'uc_338.1-235'
),
'ENST00000623159' => array(
'start' => '30370108',
'end' => '30373115',
'transcript_biotype' => 'TEC',
'transcript_name' => 'RP11-306B9.1-001'
),
'ENSMUST00000158341' => array(
'start' => '51085687',
'end' => '51085803',
'transcript_biotype' => 'snoRNA',
'transcript_name' => 'Gm22088-201'
)
)
$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_0008M5_0001' => array(
'genes_in_region' => array(
'ENSG00000184304' => array(
[maximum depth reached]
),
'ENSG00000240201' => array(
[maximum depth reached]
),
'ENSG00000248975' => array(
[maximum depth reached]
),
'ENSG00000257904' => array(
[maximum depth reached]
),
'ENSG00000258350' => array(
[maximum depth reached]
),
'ENSG00000279032' => array(
[maximum depth reached]
)
),
'tissues_title' => array(
(int) 0 => 'Breast',
(int) 1 => 'Colon',
(int) 2 => 'Heart',
(int) 3 => 'Kidney',
(int) 4 => 'Lung',
(int) 5 => 'Muscle',
(int) 6 => 'Ovary',
(int) 7 => 'Placenta',
(int) 8 => 'Adipose',
(int) 9 => 'Brain',
(int) 10 => 'Heart',
(int) 11 => 'Liver',
(int) 12 => 'Lung',
(int) 13 => 'Ovary',
(int) 14 => 'Placenta',
(int) 15 => 'Testis',
(int) 16 => 'Ovary',
(int) 17 => 'Kidney',
(int) 18 => 'Muscle',
(int) 19 => 'Adipose',
(int) 20 => 'Breast',
(int) 21 => 'Colon',
(int) 22 => 'Heart',
(int) 23 => 'Kidney',
(int) 24 => 'Liver',
(int) 25 => 'Ovary',
(int) 26 => 'Placenta',
(int) 27 => 'Testis',
(int) 28 => 'Adrenal',
(int) 29 => 'Brain',
(int) 30 => 'Colon',
(int) 31 => 'Kidney',
(int) 32 => 'Lung',
(int) 33 => 'Muscle',
(int) 34 => 'Ovary',
(int) 35 => 'Placenta',
(int) 36 => 'Testis',
(int) 37 => 'Breast',
(int) 38 => 'Heart',
(int) 39 => 'Kidney',
(int) 40 => 'Testis',
(int) 41 => 'Adipose',
(int) 42 => 'Adrenal',
(int) 43 => 'Brain',
(int) 44 => 'Breast',
(int) 45 => 'Colon',
(int) 46 => 'Heart',
(int) 47 => 'Kidney',
(int) 48 => 'Liver',
(int) 49 => 'Lung',
(int) 50 => 'Ovary',
(int) 51 => 'Testis',
(int) 52 => 'Placenta',
(int) 53 => 'Testis',
(int) 54 => 'Testis',
(int) 55 => 'Placenta',
(int) 56 => 'Testis'
)
)
)
$accession = array(
'region_elements' => array(
'region_element_id' => 'CIL_0008M5_0002',
'tax_id' => '10090',
'chromosome' => '12',
'seq_start' => '50670036',
'seq_end' => '51271348',
'region_length' => '601312',
'region_type' => 'VISTA',
'el_id' => 'hs343'
)
)
$gene_el = array(
'ENST00000623159' => array(
'Placenta' => array(
'average_FPKM' => '0.019',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.009',
'stddev_FPKM' => '0.00'
)
)
)
$gene_key = 'ENSG00000279032'
$is_first = false
$tran_el = array(
'Placenta' => array(
'average_FPKM' => '0.019',
'stddev_FPKM' => '0.00'
),
'Testis' => array(
'average_FPKM' => '0.009',
'stddev_FPKM' => '0.00'
)
)
$tran_key = 'ENST00000623159'
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
| Source ID |
Type |
Tax ID |
Position |
| hs343 |
VISTA |
10090 |
12:50670036-51271348  |
| Gene | Transcript | Position | Biotype |
|---|
(PRKD1)