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Code Context
                ),
                E_USER_WARNING
            );
$key = 'cake_dev_eng'
$value = array(
	'LC_MESSAGES' => array()
)
$config = '_cake_core_'
$settings = array(
	'prefix' => '*****',
	'engine' => 'File',
	'path' => '/var/www/angiogenes/app/tmp/cache/persistent/',
	'serialize' => true,
	'duration' => (int) 10,
	'lock' => true,
	'isWindows' => false,
	'mask' => (int) 436,
	'probability' => (int) 100,
	'groups' => array()
)
$success = false
Cache::write() - CORE/Cake/Cache/Cache.php, line 323
I18n::translate() - CORE/Cake/I18n/I18n.php, line 237
__d - CORE/Cake/basics.php, line 617
Cache::write() - CORE/Cake/Cache/Cache.php, line 321
DataSource::listSources() - CORE/Cake/Model/Datasource/DataSource.php, line 110
Mysql::listSources() - CORE/Cake/Model/Datasource/Database/Mysql.php, line 219
Model::setSource() - CORE/Cake/Model/Model.php, line 1142
Model::getDataSource() - CORE/Cake/Model/Model.php, line 3551
Model::__call() - CORE/Cake/Model/Model.php, line 808
Gene::findByid() - APP/Controller/GeneController.php, line 301
GeneController::show() - APP/Controller/GeneController.php, line 301
ReflectionMethod::invokeArgs() - [internal], line ??
Controller::invokeAction() - CORE/Cake/Controller/Controller.php, line 490
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 191
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108

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                ),
                E_USER_WARNING
            );
$key = 'default_angiogenes_list'
$value = null
$config = '_cake_model_'
$settings = array(
	'prefix' => '*****',
	'engine' => 'File',
	'path' => '/var/www/angiogenes/app/tmp/cache/models/',
	'serialize' => true,
	'duration' => (int) 10,
	'lock' => true,
	'isWindows' => false,
	'mask' => (int) 436,
	'probability' => (int) 100,
	'groups' => array()
)
$success = false
Cache::write() - CORE/Cake/Cache/Cache.php, line 323
DataSource::listSources() - CORE/Cake/Model/Datasource/DataSource.php, line 110
Mysql::listSources() - CORE/Cake/Model/Datasource/Database/Mysql.php, line 219
Model::setSource() - CORE/Cake/Model/Model.php, line 1142
Model::getDataSource() - CORE/Cake/Model/Model.php, line 3551
Model::__call() - CORE/Cake/Model/Model.php, line 808
Gene::findByid() - APP/Controller/GeneController.php, line 301
GeneController::show() - APP/Controller/GeneController.php, line 301
ReflectionMethod::invokeArgs() - [internal], line ??
Controller::invokeAction() - CORE/Cake/Controller/Controller.php, line 490
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 191
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108

Warning (512): _cake_model_ cache was unable to write 'default_angiogenes_list' to File cache [CORE/Cake/Cache/Cache.php, line 323]
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                ),
                E_USER_WARNING
            );
$key = 'default_angiogenes_list'
$value = array(
	(int) 0 => 'diffexp',
	(int) 1 => 'experiment',
	(int) 2 => 'expressed_transcripts',
	(int) 3 => 'genes',
	(int) 4 => 'go_annotations',
	(int) 5 => 'homologues',
	(int) 6 => 'repeats',
	(int) 7 => 'study',
	(int) 8 => 'synonyms',
	(int) 9 => 'transcripts'
)
$config = '_cake_model_'
$settings = array(
	'prefix' => '*****',
	'engine' => 'File',
	'path' => '/var/www/angiogenes/app/tmp/cache/models/',
	'serialize' => true,
	'duration' => (int) 10,
	'lock' => true,
	'isWindows' => false,
	'mask' => (int) 436,
	'probability' => (int) 100,
	'groups' => array()
)
$success = false
Cache::write() - CORE/Cake/Cache/Cache.php, line 323
DataSource::listSources() - CORE/Cake/Model/Datasource/DataSource.php, line 110
Mysql::listSources() - CORE/Cake/Model/Datasource/Database/Mysql.php, line 236
Model::setSource() - CORE/Cake/Model/Model.php, line 1142
Model::getDataSource() - CORE/Cake/Model/Model.php, line 3551
Model::__call() - CORE/Cake/Model/Model.php, line 808
Gene::findByid() - APP/Controller/GeneController.php, line 301
GeneController::show() - APP/Controller/GeneController.php, line 301
ReflectionMethod::invokeArgs() - [internal], line ??
Controller::invokeAction() - CORE/Cake/Controller/Controller.php, line 490
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 191
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108

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                ),
                E_USER_WARNING
            );
$key = 'default_angiogenes_genes'
$value = null
$config = '_cake_model_'
$settings = array(
	'prefix' => '*****',
	'engine' => 'File',
	'path' => '/var/www/angiogenes/app/tmp/cache/models/',
	'serialize' => true,
	'duration' => (int) 10,
	'lock' => true,
	'isWindows' => false,
	'mask' => (int) 436,
	'probability' => (int) 100,
	'groups' => array()
)
$success = false
Cache::write() - CORE/Cake/Cache/Cache.php, line 323
DataSource::_cacheDescription() - CORE/Cake/Model/Datasource/DataSource.php, line 310
DataSource::describe() - CORE/Cake/Model/Datasource/DataSource.php, line 135
Mysql::describe() - CORE/Cake/Model/Datasource/Database/Mysql.php, line 332
Model::schema() - CORE/Cake/Model/Model.php, line 1372
DboSource::fields() - CORE/Cake/Model/Datasource/DboSource.php, line 2491
DboSource::read() - CORE/Cake/Model/Datasource/DboSource.php, line 1054
Model::_readDataSource() - CORE/Cake/Model/Model.php, line 2947
Model::find() - CORE/Cake/Model/Model.php, line 2919
DboSource::query() - CORE/Cake/Model/Datasource/DboSource.php, line 597
Model::__call() - CORE/Cake/Model/Model.php, line 808
Gene::findByid() - APP/Controller/GeneController.php, line 301
GeneController::show() - APP/Controller/GeneController.php, line 301
ReflectionMethod::invokeArgs() - [internal], line ??
Controller::invokeAction() - CORE/Cake/Controller/Controller.php, line 490
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 191
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165

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                ),
                E_USER_WARNING
            );
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		'collate' => 'latin1_swedish_ci',
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	'chromosome' => array(
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		'charset' => 'latin1'
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	'gene_source' => array(
		'type' => 'string',
		'null' => true,
		'default' => null,
		'length' => (int) 64,
		'collate' => 'latin1_swedish_ci',
		'charset' => 'latin1'
	),
	'gene_biotype' => array(
		'type' => 'string',
		'null' => true,
		'default' => null,
		'length' => (int) 128,
		'collate' => 'latin1_swedish_ci',
		'charset' => 'latin1'
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	'annotation_version' => array(
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		'type' => 'string',
		'null' => true,
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		'length' => (int) 128,
		'collate' => 'latin1_swedish_ci',
		'charset' => 'latin1'
	)
)
$config = '_cake_model_'
$settings = array(
	'prefix' => '*****',
	'engine' => 'File',
	'path' => '/var/www/angiogenes/app/tmp/cache/models/',
	'serialize' => true,
	'duration' => (int) 10,
	'lock' => true,
	'isWindows' => false,
	'mask' => (int) 436,
	'probability' => (int) 100,
	'groups' => array()
)
$success = false
Cache::write() - CORE/Cake/Cache/Cache.php, line 323
DataSource::_cacheDescription() - CORE/Cake/Model/Datasource/DataSource.php, line 310
Mysql::describe() - CORE/Cake/Model/Datasource/Database/Mysql.php, line 372
Model::schema() - CORE/Cake/Model/Model.php, line 1372
DboSource::fields() - CORE/Cake/Model/Datasource/DboSource.php, line 2491
DboSource::read() - CORE/Cake/Model/Datasource/DboSource.php, line 1054
Model::_readDataSource() - CORE/Cake/Model/Model.php, line 2947
Model::find() - CORE/Cake/Model/Model.php, line 2919
DboSource::query() - CORE/Cake/Model/Datasource/DboSource.php, line 597
Model::__call() - CORE/Cake/Model/Model.php, line 808
Gene::findByid() - APP/Controller/GeneController.php, line 301
GeneController::show() - APP/Controller/GeneController.php, line 301
ReflectionMethod::invokeArgs() - [internal], line ??
Controller::invokeAction() - CORE/Cake/Controller/Controller.php, line 490
Dispatcher::_invoke() - CORE/Cake/Routing/Dispatcher.php, line 191
Dispatcher::dispatch() - CORE/Cake/Routing/Dispatcher.php, line 165
[main] - APP/webroot/index.php, line 108

ANGIOGENES: A knowledge database for angiogenesis

Institute of Cardiovascular Regeneration, Goethe University Frankfurt

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• GENES
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Gene Info
Description:
Gene Accession	Gene Name	Tax ID	Strand	Position	Gene Biotype
ENSMUSG00000024109	Nrxn1	10090	-	17:90033631-91093071	protein_coding
	Transcript Accession		Transcript Name	Position	Transcript Biotype
	ENSMUST00000054059		Nrxn1-020	90036880-91088726	protein_coding
	ENSMUST00000072671		Nrxn1-002	90033631-91088907	protein_coding
	ENSMUST00000159419		Nrxn1-003	90703176-91092791	retained_intron
	ENSMUST00000159778		Nrxn1-016	90035800-90455872	protein_coding
	ENSMUST00000160467		Nrxn1-006	90699931-91092771	retained_intron
	ENSMUST00000160800		Nrxn1-014	90036896-91092733	protein_coding
	ENSMUST00000160844		Nrxn1-001	90033644-91093071	protein_coding
	ENSMUST00000161102		Nrxn1-013	90208288-91092803	retained_intron
	ENSMUST00000161402		Nrxn1-011	90036669-91088726	protein_coding
	ENSMUST00000161637		Nrxn1-004	90535206-91088483	processed_transcript
	ENSMUST00000162002		Nrxn1-007	91085458-91092753	retained_intron
	ENSMUST00000162227		Nrxn1-008	90620048-90630027	retained_intron
	ENSMUST00000172466		Nrxn1-021	90036896-90455950	protein_coding
	ENSMUST00000173222		Nrxn1-005	90036853-90088140	processed_transcript
	ENSMUST00000173917		Nrxn1-022	90036270-90088400	protein_coding
	ENSMUST00000174331		Nrxn1-015	90035418-91088915	protein_coding
	ENSMUST00000174337		Nrxn1-017	90036297-90455886	protein_coding
	ENSMUST00000176118		Nrxn1-012	90362794-90588842	protein_coding
	ENSMUST00000176918		Nrxn1-019	90162305-90349360	processed_transcript
	ENSMUST00000177342		Nrxn1-018	90589916-90630224	protein_coding
	ENSMUST00000196269		Nrxn1-025	90208288-90454822	retained_intron
	ENSMUST00000196559		Nrxn1-024	90362553-90588693	protein_coding
	ENSMUST00000197104		Nrxn1-026	90037324-90208422	protein_coding
	ENSMUST00000197224		Nrxn1-023	90590194-90700774	protein_coding
	ENSMUST00000197268		Nrxn1-010	90035416-90088396	protein_coding
	ENSMUST00000198899		Nrxn1-009	90453777-90456573	retained_intron

Expression Patterns Split around values. Cell Line Name Tissue Condition Heat Map Numeric Values Transcript ID C166 Tie2+ EC mES ENSMUST00000161402 N/A 0.135±0.00 N/A ENSMUST00000161637 0.008±0.00 N/A 0.020±0.00 ENSMUST00000162002 N/A N/A 0.033±0.01 ENSMUST00000162227 N/A 0.077±0.00 N/A ENSMUST00000172466 N/A N/A 0.017±0.00 ENSMUST00000173917 N/A 0.581±0.00 N/A ENSMUST00000176118 N/A 0.147±0.00 N/A ENSMUST00000176918 0.078±0.00 N/A N/A ENSMUST00000177342 N/A N/A 0.318±0.00 ENSMUST00000196559 0.056±0.00 N/A N/A ENSMUST00000197268 0.012±0.00 0.773±0.00 N/A ENSMUST00000198899 N/A 0.019±0.00 0.021±0.00

Conserved Regions
Not located within a conserved region.

Gene Ontology
GO ID	Evidence Type	GO Description
GO:0001525	IEA	angiogenesis
GO:0005246	IGI	calcium channel regulator activity
GO:0005509	ISS	calcium ion binding
GO:0005515	IPI	protein binding
GO:0005886	ISS	plasma membrane
GO:0007155	IEA	cell adhesion
GO:0007157	IDA	heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules
GO:0007158	IDA	neuron cell-cell adhesion
GO:0007268	IGI	synaptic transmission
GO:0007269	IGI	neurotransmitter secretion
GO:0007416	IGI	synapse assembly
GO:0007612	IMP	learning
GO:0009986	IDA	cell surface
GO:0016021	IEA	integral component of membrane
GO:0016339	IDA	calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules
GO:0021707	IGI	cerebellar granule cell differentiation
GO:0030054	IEA	cell junction
GO:0030139	ISS	endocytic vesicle
GO:0030534	IMP	adult behavior
GO:0033130	IDA	acetylcholine receptor binding
GO:0035176	IEA	social behavior
GO:0035418	IDA	protein localization to synapse
GO:0042297	IEA	vocal learning
GO:0042551	IDA	neuron maturation
GO:0042734	IDA	presynaptic membrane
GO:0044295	IDA	axonal growth cone
GO:0045184	IDA	establishment of protein localization
GO:0046872	IEA	metal ion binding
GO:0048306	IDA	calcium-dependent protein binding
GO:0050839	IPI	cell adhesion molecule binding
GO:0050885	IMP	neuromuscular process controlling balance
GO:0051490	IDA	negative regulation of filopodium assembly
GO:0051965	IGI	positive regulation of synapse assembly
GO:0051968	IMP	positive regulation of synaptic transmission, glutamatergic
GO:0060076	IC	excitatory synapse
GO:0060077	IC	inhibitory synapse
GO:0060134	IMP	prepulse inhibition
GO:0061178	IMP	regulation of insulin secretion involved in cellular response to glucose stimulus
GO:0071625	IEA	vocalization behavior
GO:0090004	IDA	positive regulation of establishment of protein localization to plasma membrane
GO:0090129	IDA	positive regulation of synapse maturation
GO:0097091	IDA	synaptic vesicle clustering
GO:0097104	IDA	postsynaptic membrane assembly
GO:0097105	IDA	presynaptic membrane assembly
GO:0097109	IPI	neuroligin family protein binding
GO:0097112	IDA	gamma-aminobutyric acid receptor clustering
GO:0097114	IDA	N-methyl-D-aspartate receptor clustering
GO:0097116	IDA	gephyrin clustering
GO:0097117	IDA	guanylate kinase-associated protein clustering
GO:0097118	IDA	neuroligin clustering
GO:0097119	IDA	postsynaptic density protein 95 clustering
GO:0097120	IDA	receptor localization to synapse
GO:2000310	IDA	regulation of N-methyl-D-aspartate selective glutamate receptor activity
GO:2000311	IDA	regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity
GO:2000463	IMP	positive regulation of excitatory postsynaptic membrane potential
GO:2000821	IMP	regulation of grooming behavior

Homologs
ENSEMBL Accession	Gene Name	Description	Biotype	Species
ENSDARG00000063150	nrxn2b		protein_coding	Danio_rerio
ENSG00000179915	NRXN1	neurexin 1	protein_coding	Homo_sapiens

Loading

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                ),
                E_USER_WARNING
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	'ErrorHandler' => '/var/www/angiogenes/lib/Cake/Error/ErrorHandler.php',
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	'ObjectCollection' => '/var/www/angiogenes/lib/Cake/Utility/ObjectCollection.php',
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	'String' => '/var/www/angiogenes/lib/Cake/Utility/String.php',
	'Dispatcher' => '/var/www/angiogenes/lib/Cake/Routing/Dispatcher.php',
	'CakeEventListener' => '/var/www/angiogenes/lib/Cake/Event/CakeEventListener.php',
	'CakeRequest' => '/var/www/angiogenes/lib/Cake/Network/CakeRequest.php',
	'CakeResponse' => '/var/www/angiogenes/lib/Cake/Network/CakeResponse.php',
	'CakeEvent' => '/var/www/angiogenes/lib/Cake/Event/CakeEvent.php',
	'CakeEventManager' => '/var/www/angiogenes/lib/Cake/Event/CakeEventManager.php',
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	'CacheDispatcher' => '/var/www/angiogenes/lib/Cake/Routing/Filter/CacheDispatcher.php',
	'Router' => '/var/www/angiogenes/lib/Cake/Routing/Router.php',
	'CakeRoute' => '/var/www/angiogenes/lib/Cake/Routing/Route/CakeRoute.php',
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	'Gene' => '/var/www/angiogenes/app/Model/Gene.php',
	'AppModel' => '/var/www/angiogenes/app/Model/AppModel.php',
	'Model' => '/var/www/angiogenes/lib/Cake/Model/Model.php',
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	'FormHelper' => '/var/www/angiogenes/lib/Cake/View/Helper/FormHelper.php',
	'SessionHelper' => '/var/www/angiogenes/lib/Cake/View/Helper/SessionHelper.php'
)
$config = '_cake_core_'
$settings = array(
	'prefix' => '*****',
	'engine' => 'File',
	'path' => '/var/www/angiogenes/app/tmp/cache/persistent/',
	'serialize' => true,
	'duration' => (int) 10,
	'lock' => true,
	'isWindows' => false,
	'mask' => (int) 436,
	'probability' => (int) 100,
	'groups' => array()
)
$success = false
Cache::write() - CORE/Cake/Cache/Cache.php, line 323
App::shutdown() - CORE/Cake/Core/App.php, line 899
[main] - [internal], line ??

Warning (512): _cake_core_ cache was unable to write 'method_cache' to File cache [CORE/Cake/Cache/Cache.php, line 323]
Code Context
                ),
                E_USER_WARNING
            );
$key = 'method_cache'
$value = array(
	(int) 0 => false,
	'name' => array(
		'8e3e6ac3f0ef6fb8bcf1424a6423ed87' => '`angiogenes`',
		'4d0d73f550e4b0573d9cf666d63a0244' => '`genes`',
		'003d5968b53baeeb0cb27d56c4d447af' => '`Gene`.`id`',
		'f32f1dc049466870a2299961f0604112' => '`Gene`.`gene_version`',
		'433a39b330b04a021541e6fa89d80ffd' => '`Gene`.`tax_id`',
		'56705ff3488da428f13156180dbc9fbc' => '`Gene`.`assembly`',
		'b7d572bb36c8f0f2ecfe36921c14fbf3' => '`Gene`.`chromosome`',
		'edf6b12f8a40424f91fa0a40f0eab275' => '`Gene`.`strand`',
		'71d92ec0ad29837870abd0de3ae8addc' => '`Gene`.`start`',
		'62e43d606bf4cdae2d6694c62e19e7fa' => '`Gene`.`end`',
		'7043386674301bd31c5e629dfdadabd4' => '`Gene`.`gene_name`',
		'f1454297621ddcf07c418e47f67d3857' => '`Gene`.`gene_source`',
		'27d53785bfcd771f1901030b4bb87d02' => '`Gene`.`gene_biotype`',
		'b93574bf8a03f2d6f6486e920115e0d1' => '`Gene`.`annotation_version`',
		'1c4a3f5d90070e8ea1c62ca077df603e' => '`Gene`.`gene_description`',
		'8ca7a0c53312b8ae3cfa40a9d814adac' => '`Gene`'
	),
	'fields' => array(
		'47cba37bb7792f95f7499f6996d48351' => array(
			(int) 0 => '`Gene`.`id`',
			(int) 1 => '`Gene`.`gene_version`',
			(int) 2 => '`Gene`.`tax_id`',
			(int) 3 => '`Gene`.`assembly`',
			(int) 4 => '`Gene`.`chromosome`',
			(int) 5 => '`Gene`.`strand`',
			(int) 6 => '`Gene`.`start`',
			(int) 7 => '`Gene`.`end`',
			(int) 8 => '`Gene`.`gene_name`',
			(int) 9 => '`Gene`.`gene_source`',
			(int) 10 => '`Gene`.`gene_biotype`',
			(int) 11 => '`Gene`.`annotation_version`',
			(int) 12 => '`Gene`.`gene_description`'
		)
	)
)
$config = '_cake_core_'
$settings = array(
	'prefix' => '*****',
	'engine' => 'File',
	'path' => '/var/www/angiogenes/app/tmp/cache/persistent/',
	'serialize' => true,
	'duration' => (int) 10,
	'lock' => true,
	'isWindows' => false,
	'mask' => (int) 436,
	'probability' => (int) 100,
	'groups' => array()
)
$success = false
Cache::write() - CORE/Cake/Cache/Cache.php, line 323
DboSource::__destruct() - CORE/Cake/Model/Datasource/DboSource.php, line 3539
[main] - [internal], line ??