Phenotyping Protocols for Pipeline: BCM Pipeline BCM_001

E9.5 and Younger
E12.5
E14.5-E15.5
E18.5 and Older
Week 9
Tick Mandatory
Combined SHIRPA and Dysmorphology BCM_CSD_001 SHIRPA and dysmorphology were originally always separate assessments.  However they have recently been combined as assessments, so that they take place at the same time.The purpose of the assessments is to examine mice for obvious physical characteristics, behaviors and morphological abnormalities.Descriptions include abnormal locomotion/appearance/behavior/reflex reactions. The BCM-specific CSD procedure does not contain the mandatory parameter Locomotor Activity, as this is measured in Open Field instead.
Tick Mandatory
Open Field BCM_OFD_001 The Open Field test is used to assess anxiety and exploratory behaviors. It is based on the natural tendency of an animal to explore and to protect itself using avoidance which translates to a normal animal spending more time in the periphery of the Open Field arena than in the center (the most anxiogenic area).
Tick Mandatory
Open Field IMPC_OFD_001 The Open Field test is used to assess anxiety and exploratory behaviors. It is based on the natural tendency of an animal to explore and to protect itself using avoidance which translates to a normal animal spending more time in the periphery of the Open Field arena than in the center (the most anxiogenic area).
Tick Mandatory
Grip Strength IMPC_GRS_001 The grip strength test is used to measure the neuromuscular function as maximal muscle strength of forelimbs and combined forelimbs and hind limbs. These are assessed by the grasping applied by the mouse on a grid that is connected to a sensor. Three trials are carried out in succession measuring forelimb-strength only, followed by three successive trials measuring the combined forelimb/hindlimb grip strength. All grip strength values obtained are normalized against mouse body weight.Ontological description: MP:0001515 - abnormal grip strength.
Tick Mandatory
Combined SHIRPA and Dysmorphology IMPC_CSD_003 SHIRPA and dysmorphology were originally always separate assessments.  However they have recently been combined as assessments, so that they take place at the same time.The purpose of the assessments is to examine mice for obvious physical characteristics, behaviors and morphological abnormalities.Descriptions include abnormal locomotion/appearance/behavior/reflex reactions.
Week 10
Tick Mandatory
Acoustic Startle and Pre-pulse Inhibition (PPI) BCM_ACS_001 The acoustic startle response is characterized by an exaggerated flinching response to an unexpected strong auditory stimulus (pre-pulse). This response can be attenuated when it is preceded by a weaker stimulus (pre-pulse) and is the principle underlying pre-pulse inhibition (PPI). PPI has been described in numerous species, including mice and humans and provides an operational measure of sensorimotor gating reflecting the ability of an animal to successfully integrate and inhibit sensory information. Several clinical studies have shown that a number of human disorders have impaired PPI including: schizophrenia, Huntington’s disease, fragile X syndrome, and autism. The acoustic startle and PPI paradigm is therefore largely used to assess sensorimotor gating and the effects of a number of treatment modalities such as putative anti-psychotics, and to explore genetic and neurobiological mechanisms underlying behaviors of relevance to psychosis (Geyer, 1999; Ouagazzal et al., 2001).Ontological description: MP:0002067 - abnormal sensory capabilities/reflexes/nociception.
Tick Mandatory
Acoustic Startle and Pre-pulse Inhibition (PPI) IMPC_ACS_003 The acoustic startle response is characterized by an exaggerated flinching response to an unexpected strong auditory stimulus (pre-pulse). This response can be attenuated when it is preceded by a weaker stimulus (pre-pulse) and is the principle underlying pre-pulse inhibition (PPI). PPI has been described in numerous species, including mice and humans and provides an operational measure of sensorimotor gating reflecting the ability of an animal to successfully integrate and inhibit sensory information. Several clinical studies have shown that a number of human disorders have impaired PPI including: schizophrenia, Huntington’s disease, fragile X syndrome, and autism. The acoustic startle and PPI paradigm is therefore largely used to assess sensorimotor gating and the effects of a number of treatment modalities such as putative anti-psychotics, and to explore genetic and neurobiological mechanisms underlying behaviors of relevance to psychosis (Geyer, 1999; Ouagazzal et al., 2001).Ontological description: MP:0002067 - abnormal sensory capabilities/reflexes/nociception.
Week 11
Tick Mandatory
Indirect Calorimetry IMPC_CAL_002 Indirect calorimetry provides detailed information on the energy metabolism of mutant mice. Energy expenditure is evaluated through indirect calorimetry by measuring oxygen consumption with an open flow respirometric system. CO2 and O2 sensors measure the difference in CO2 and O2 concentrations in air volumes flowing through control or animal cages. The amount of oxygen consumed over a given period of time can thus be calculated, as far as the air flow through the cage is known. Data are expressed as ml O2 h-1animal-1. The system also monitors CO2 production, therefore, the respiratory exchange ratio (RER) and heat production can be calculated. An activity and food and water intake monitoring system can also be integrated into the set up in order to investigate circadian pattern and behaviour.Ontological description: MP:0005266 - abnormal metabolism.
Indirect Calorimetry IMPC_CAL_003 Indirect calorimetry provides detailed information on the energy metabolism of mutant mice. Energy expenditure is evaluated through indirect calorimetry by measuring oxygen consumption with an open flow respirometric system. CO2 and O2 sensors measure the difference in CO2 and O2 concentrations in air volumes flowing through control or animal cages. The amount of oxygen consumed over a given period of time can thus be calculated, as far as the air flow through the cage is known. Data are expressed as ml O2 h-1animal-1. The system also monitors CO2 production, therefore, the respiratory exchange ratio (RER) and heat production can be calculated. An activity and food and water intake monitoring system can also be integrated into the set up in order to investigate circadian pattern and behaviour.Ontological description: MP:0005266 - abnormal metabolism.
Week 12
Tick Mandatory
Electrocardiogram (ECG) IMPC_ECG_001 To provide a high throughput method to obtain Electrocardiograms in a conscious mouse.
Echo IMPC_ECH_001 To assess the functionality of the heart in order to determine the presence of a mutant phenotype.
Tick Mandatory
Electrocardiogram (ECG) IMPC_ECG_002 To provide a high throughput method to obtain Electrocardiograms in a conscious mouse.
Week 13
Challenge Whole Body Plethysmography IMPC_CHL_001 The purpose of this procedure is to record the respiratory function of mice, when submitted to methacholine or hypoxia challenge. Other similar protocols, for allergen sensitization and for LPS challenges, will also be available. Ontological description:  MP:0002327 - abnormal respiratory function
Tick Mandatory
Intraperitoneal glucose tolerance test (IPGTT) IMPC_IPG_001 The glucose tolerance test measures the clearance of an intraperitoneally injected glucose load from the body. It is used to detect disturbances in glucose metabolism that can be linked to human conditions such as diabetes or metabolic syndrome. Animals are fasted for approximately 16 hours, fasted blood glucose levels are determined before a solution of glucose is administered by intra-peritoneal (IP) injection. Subsequently, the blood glucose level is measured at different time points during the following 2 hours.Ontological description: MP:0005559 - increased circulating glucose level, MP:0005560 - decreased circulating glucose level, MP:0005293 - impaired glucose tolerance, MP:0005292 - improved glucose tolerance, MP:0005291           abnormal glucose tolerance, MP:0000188 - abnormal circulating glucose level.
Week 14
Tick Mandatory
Body Composition (DEXA lean/fat) IMPC_DXA_001 Measure bone mineral content and density as well as body composition in mice using the DEXA (Dual Energy X-ray Absorptiometry) analyser.
Tick Mandatory
X-ray IMPC_XRY_001 Construct and analyse digital X-ray images in immobilised mice using a Faxitron X-Ray system or NTB digital X-ray scanner.
Tick Mandatory
Auditory Brain Stem Response IMPC_ABR_002 Auditory brainstem response test determines hearing sensitivity and other physiological parameters using evoked potential recordings in anesthetized mice.Ontological description: MP:0004738 - abnormal brainstem auditory evoked potential.
Week 15
Tick Mandatory
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Week 16
Tick Mandatory
Hematology IMPC_HEM_001 Hematological assessment of blood determines blood cell counts (white blood cells, red blood cells, hemoglobin, and platelets) and additional hematological parameters (hematocrit, mean cell volume, mean corpuscular hemoglobin, mean cell hemoglobin concentration) can be derived using these indices. These tests will indicate abnormalities in the production of blood and its components (blood cells and hemoglobin) as well as in the associated blood-forming organs. Ontological description: MP:0002429 - abnormal blood cell morphology/development.
Tick Mandatory
Tissue Embedding and Block Banking IMPC_BLK_001 Collect and fix a standard list of tissues from the complete necropsy (see IMPC Gross Pathology & Tissue Collection SOP)Trim the fixed tissues into cassettes for processingEmbed the tissues in paraffin in a standard orientation
Tick Mandatory
Hematology IMPC_HEM_002 Hematological assessment of blood determines blood cell counts (white blood cells, red blood cells, hemoglobin, and platelets) and additional hematological parameters (hematocrit, mean cell volume, mean corpuscular hemoglobin, mean cell hemoglobin concentration) can be derived using these indices. These tests will indicate abnormalities in the production of blood and its components (blood cells and hemoglobin) as well as in the associated blood-forming organs. Ontological description: MP:0002429 - abnormal blood cell morphology/development.
Tick Mandatory
Clinical Chemistry IMPC_CBC_002 Clinical chemistry determines biochemical parameters in plasma including enzymatic activity, specific substrates and electrolytes. Ontological description: MP:0001545 – blood physiology abnormalities.
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Gross Pathology and Tissue Collection IMPC_PAT_002 To perform a complete necropsy to detect and record abnormal external findings and macroscopic alterations in internal and external organs, record body and heart weights (see IMPC Heart Weight SOP), and collect a standardized list of tissues for fixation with or without further processing (see non-mandatory IMPC Tissue Embedding & Block Banking SOP).
Tick Mandatory
Clinical Chemistry IMPC_CBC_003 Clinical chemistry determines biochemical parameters in plasma including enzymatic activity, specific substrates and electrolytes. Ontological description: MP:0001545 – blood physiology abnormalities.
Unrestricted
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Body Weight IMPC_BWT_001 The body weight test measures the weight of the mouse in a time series, allowing monitoring of its evolution; also, it is required in many other procedures.
Adult LacZ IMPC_ALZ_001 To stain adult mutant  and control tissues for bacterial beta-galactosidase (LacZ) activity in order to assess the adult organ, tissue, substructure and cell type of gene expression of IKMC alleles utilizing a LacZ reporter.  Description: Adult mouse tissues are scored for presence of LacZ staining which is distinct from either nonspecific staining observed in wildtype control mice, or is too faint to score as present.  Intensity of staining is not required but can be reported.   Anatomical terms to localize staining to the organ, structure, substructure, or cell type will use standard mouse anatomy ontology terms.