more up to date document

can be found here. See also genes found in brains and kinds of neurons.
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author: 'kanzure@gmail.com'
license: 'GPL2+'
urls:
    - "http://en.wikipedia.org/w/index.php?title=List_of_regions_in_the_human_brain&oldid=303470767"
citations: #unorganized
    - cytoarchitektonik: "Constantin von Economo & Georg N. Koskinas (1925). Die Cytoarchitektonik der Hirnrinde des erwachsenen Menschen. Vienna and Berlin: Julius Springer."
        see also:
            - "Atlas of cytoarchitectonics of the adult human cerebral cortex"
            - "Zellaufbau der Großhirnrinde"
            - "The cellular architecture of the cerebral cortex"
            - "Die cytoarchitektonik der hirnrinde des erwachsenen menschen"
    - "Meynert, T. (1872) Der Bau der Gross-Hirnrinde und seine örtlichen Verschiedenheiten, nebst einem pathologisch–anatomischen Corollarium. J.H. Heuser’sche Verlagsbuchhandlung, Neuwied & Leipzig."
    - "Campbell, A.W. (1903) Histological studies on cerebral localisation. Proceedings of the Royal Society of London 72: 488-492."
    - "Elliot Smith, G. (1907) A new topographical survey of the human cerebral cortex, being an account of the distribution of the anatomically distinct cortical areas and their relationship to the cerebral sulci. Journal of Anatomy and Physiology (London) 41: 237-254."
    - "Brodmann, K. (1909) Vergleichende Lokalisationslehre der Grosshirnrinde in ihren Prinzipien dargestellt auf Grund des Zellenbaues. Johann Ambrosius Barth, Leipzig."
    - "Garey, L.J. (2006) Brodmann’s Localisation in the Cerebral Cortex. Springer Science, New York."
    - "Economo, C. von, Koskinas, G.N. (1925) Die Cytoarchitektonik der Hirnrinde des erwachsenen Menschen. Julius Springer, Vienna."
    - "Economo, C. von, Koskinas, G.N. (2008) Atlas of Cytoarchitectonics of the Adult Human Cerebral Cortex (translated, revised and edited by L.C. Triarhou). Karger, Basel."
queries:
    #useful search terms
    - "cytoarchitectonic map"
    - "brodmann areas"
    - "von economo"
    - "neuroanatomy"

rhombencephalon:
    name: hindbrain
    myelencephalon:
        medulla oblongata:
            medullary pyramids:
            medullary cranial nerve nuclei:
                links:
                - !wikipedia "[[cranial nerve nuclei]]"
                inferior salivatory nucleus:
                nucleus ambiguus:
                dorsal nucleus of vagus nerve:
                hypoglossal nucleus:
                solitary nucleus:
    metencephalon:
        links:
        - !wikipedia "[[metencephalon]]"
        pons:
            respiratory centres:
                pneumotactic centre:
                apneustic centre:
            pontine cranial nerve nuclei:
                links:
                - !wikipedia "[[cranial nerve nuclei]]"
                chief nucleus of the trigeminal nerve sensory nucleus:
                    links:
                    - !wikipedia "[[trigeminal nerve]]"
                motor nucleus for the trigeminal nerve:
                abducens nucleus:
                facial nerve nucleus:
                vestibulocochlear nerve nuclei:
                    links:
                    - !wikipedia "[[vestibulocochlear nerve]]"
                    - !wikipedia "[[vestibular nuclei]]"
                    - !wikipedia "[[cochlear nuclei]]"
                superior salivatory nucleus:
        paramedian pontine reticular formation:
        cerebellum:
            cerebellum vermis:
            cerebellar hemispheres:
                anterior lobe:
                posterior lobe:
                flocculonodular lobe:
            cerebellar nuclei:
                fastigial nucleus:
                globose nucleus:
                emboliform nucleus:
                dentate nucleus:
mesencephalon:
    name: midbrain
    links:
    - !wikipedia "[[mesencephalon]]"
    tectum:
        inferior colliculi:
            links:
            - !wikipedia "[[inferior colliculus]]"
        superior colliculi: &superior-colliculi
            links:
            - !wikipedia "[[superior colliculus]]"
    mesencephalic duct:
        name: cerebral aqueduct, Aqueduct of Sylvius
    cerebral peduncle:
    midbrain tegmentum:
        ventral tegmental areas: &ventral-tegmental-areas
            characteristics:
            - !supplies dopamine to nucleus accumbens, prefrontal cortex #reward learning
            - GABA
            - glutamate neurons
            diseases:
            #overactivity of VTA dopaminergic projections
            - *schizophrenia
        red nucleus:
        crus cerebri:
    pretectum:
prosencephalon:
    name: forebrain
    links:
    - !wikipedia "[[prosencephalon]]"
    diencephalon:
        epithalamus:
            pineal gland:
                name: pineal body
            habenular nuclei:
            stria medullares:
            tenia thalami:
        third ventricle:
        thalamus:
            anterior nuclear group:
                anteroventral nucleus:
                anterodorsal nucleus:
                anteromedial nucleus:
            medial nuclear group:
                medial dorsal nucleus:
                midline nuclear group:
                paratenial nucleus:
                reuniens nucleus:
                rhomboidal nucleus:
                intralaminar nuclear group:
                centromedial nucleus:
                parafascicular nucleus:
                paracentral nucleus:
                central lateral nucleus:
                central medial nucleus:
            lateral nuclear group:
                lateral dorsal nucleus:
                lateral posterior nucleus:
                pulvinar:
            ventral nuclear group:
                ventral anterior nucleus:
                ventral lateral nucleus:
                ventral posterior nucleus:
                    ventral posterior lateral nucleus:
                    ventral posterior medial nucleus:
            metathalamus:
                medial geniculate body:
                lateral geniculate body:
            thalamic reticular nucleus:
        hypothalamus:
            name: limbic system, HPA axis #or should this be a list?
            links:
            - !wikipedia "[[limbic system]]"
            - !wikipedia "[[hypothalamus]]"
            - !wikipedia "[[HPA axis]]"
            anterior:
                medial area:
                    parts of preoptic area:
                        links:
                        - !wikipedia "[[preoptic area]]"
                        medial preoptic nucleus:
                    suprachiasmatic nucleus:
                    paraventricular nucleus:
                    supraoptic nulcues:
                        notes:
                        - mainly (according to wikipedia)
                    anterior hypothalamic nucleus:
                lateral area:
                    parts of preoptic area:
                        links:
                        - !wikipedia "[[preoptic area]]"
                        lateral preoptic nucleus:
                    lateral hypothalamus:
                        name: lateral nucleus
                        localization: anterior
                    shares: #is the lateral anterior region of the diencephalon's hypothalamus part of the supraoptic nucleus?
                    - *supraoptic-nucleus
                other nuclei of preoptic area:
                    links:
                    - !wikipedia "[[preoptic area]]"
                    median preoptic nucleus:
                    periventricular preoptic nucleus:
            tuberal:
                medial area:
                    dorsomedial hypothalamic nucleus:
                    ventromedial nucleus:
                    arcuate nucleus:
                lateral area:
                    lateral hypothalamus:
                        name: lateral nucleus
                        localization: tuberal
                    lateral tuberal nuclei:
            posterior:
                medial area:
                    mammillary nuclei:
                        part of: mammillary bodies
                    posterior nucleus:
                        links:
                        - !wikipedia "[[posterior nucleus (hypothalamus)]]"
                lateral area:
                    lateral nucleus:
                        links:
                        - !wikipedia "[[lateral hypothalamus]]"
                        localization: posterior
            optic chiasm:
            subfornical organ:
            periventricular nucleus:
            infundibulum: #wtf
            tuber cinereum:
                tuberal nucleus:
                tuberomamillary nuclues:
            tuberal region:
            mammillary bodies:
            mammillary nucleus:
        subthalamus:
            name: subthalamus
            links:
            - !wikipedia "[[subthalamus]]"
            - !wikipedia "[[HPA axis]]"
            thalamic nucleus:
            zona incerta:
        pituitary gland:
            name: pituitary gland
            links:
            - !wikipedia "[[pituitary gland]]"
            - !wikipedia "[[HPA axis]]"
            neurohypophysis:
                localization: posterior #posterior pituitary
                links:
                - !wikipedia "[[posterior pituitary]]"
            intermediate pituitary:
            adenohypophysis:
                localization: anterior #anterior pituitary
                links:
                - !wikipedia "[[anterior pituitary]]"
                anterior pituitary prolactin: &anterior-pituitary-prolactin !secretion
                    secretes:
                    - prolactin
                    inhibited by:
                    #inhibited by dopamine (neurohormone) from the hypothalamus
                    - *dopamine
    telencephalon:
        name: cerebrum
        links:
        - !wikipedia "[[telencephalon]]"
        - !wikipedia "[[cerebrum]]"
        - !wikipedia "[[cerebral hemisphere]]s"
        white matter:
            corona radiata:
            internal capsule:
            external capsule:
            extreme capsule:
            arcuate fasciculus:
            uncinate fasciculus:
        subcortical:
            amygdala:
                name: paleopallium
                links:
                - !wikipedia "[[limbic system]]"
                - !wikipedia "[[limbic lobe]]"
                - !wikipedia "[[paleopallium]]"
                central nucleus:
                    links:
                    - !wikipedia "[[autonomic nervous system]]"
                medial nucleus:
                    links:
                    - !wikipedia "[[accessory olfactory system]]"
                cortical nucleus:
                    shares:
                    - *main-olfactory-system
                basomedial nuclei:
                    shares:
                    - *main-olfactory-system
                lateral nucleus:
                    shares:
                    - *frontotemporal-cortical-system
                basolateral nuclei:
                    shares:
                    - *frontotemporal-cortical-system
            base head: &archipallium
                name: archipallium
                links:
                - !wikipedia "[[archipallium]]"
                - !wikipedia "[[limbic system]]"
                - !wikipedia "[[limbic lobe]]"
                dentate gyrus:
                cornu ammonis:
                    notes:
                    - CA fields
            claustrum:
            basal ganglia: &basal-ganglia
                names:
                - "basal ganglia"
                - "basal nuclei"
                links:
                - !wikipedia "[[basal ganglia]]"
                - !wikipedia "[[Anatomical subdivisions and connections of the basal ganglia]]"
                - International Basal Ganglia Society: !link "http://www.ibags.info/"
                diseases:
                - "movement disorders"
                #degeneration of the dopamine cells in the substantia nigra
                - *parkinsons
                #damage to the striatium
                - *huntingtons
                - *tourettes
                - *obsessive-compulsive-disorder
                functions:
                - *motor-control
                - *learning
                - *action-selection
                #signals from the prefrontal cortex -> behavior switching
                - *prefrontal-cortex-behavior-switching
                - motivation:
                    see:
                    - *nucleus-accumbens
                    - *ventral-pallidium
                    - *ventral-tegmental-areas
                    notes:
                    - "dopaminergic projections from the VTA to the NA play a central role in the reward system"
                    - "Animals with stimulating electrodes implanted along this pathway will bar-press very energetically if each press is followed by a brief pulse of electrical current."
                inhibitory to:
                - motor systems #thus causing activity in those systems
                connections:
                    direct pathway:
                        path: cortex -> striatium -> GPi -> thalamus -> cortex
                        notes:
                        - two of these links are excitatory
                        - two of these links are inhibitory
                        - net effect is excitatory
                        - the cortex excites itself via the direct pathway
                    indirect pathway:
                        path: cortex -> striatum -> GPe -> STN -> GPi -> thalamus -> cortex
                        notes:
                        - three of these links are inhibitory
                        - two of these links are excitatory
                        - net effect is inhibitory
                        - the cortex inhibits itself via the indirect pathway
                neurotransmitters:
                    glutamate: #GABA
                        effect: inhibitory #GABA inhibits the basal ganglia in general
                    acetylcholine:
                        localization: *striatum
                    dopamine:
                        #used by the projection from the substantia nigra pars compacta to the striatum, and also in the analagous projection from the ventral tegmental area to the nucleus accumbens
                IBAGS structure: 
                    description: "structure according to the International Basal Ganglia Societ"
                    striatium:
                    pallidium:
                        nuclei1:
                        nuclei2:
                    substantia nigra:
                        part1:
                        part2:
                    subthalamic nucleus:
                    see also:
                    #Percheron et al. (1991)
                    - *centre-median-parafascicular-of-the-thalamus
                    #Mena-Segovia et al. (2004)
                    - *pedunculopontine-complex
                striatum: *archipallium &striatum
                    description: "receives dendritic input from many brain regions but only has axons to other regions of the basal ganglia."
                    putamen:
                    caudate nucleus:
                    nucleus accumbens: &nucleus-acumbens &ventral-striatium
                        names:
                        - nucleus accumbens
                        - ventral striatium
                    inputs:
                    - *cerebral-cortex
                    outputs:
                    - !combination
                        internal regions:
                        - internal segment of the globus pallidius (GPe)
                        - reticular part of the substantia nigra (SNr)
                        to: *thalamus
                    - basal ganglia striatum to pallidium:
                        via: *subthalamic-nucleus
                        to: *pallidium
                pallidium: &pallidium
                    #is this the same thing as ventral pallidium?
                    input from: #archipallium/striatum
                    - *striatum
                    output:
                    - !inhibits *thalamus-region-that-projects-into-motor-related-areas-of-the-cortex
                globus pallidus:
                    shares:
                    - *nucleus-lentiforms
                    - *putamen
                subthalamic nucleus:
                    input:
                    - *striatium
                    output:
                    - *pallidium
                substantia nigra: &substantia-nigra
                    similar to: *pallidium
                    output:
                    - !dopamine !to *striatium
                ventral pallidium: &ventral-pallidium
                ventral tegmental areas: *ventral-tegmental-areas
        rhinencephalon: &paleopallium
            name: paleopallium
            olfactory bulb:
            piriform cortex:
            anterior olfactory nucleus:
            olfactory tract:
            anterior commissure:
        lateral ventricles:
        allocortex:
            names:
            - "heterotypic cortex"
            notes:
            - "has less than 6 layers"
            - "the other 10% if 90% of the cerebral cortex is the neocortex"
            includes:
            - *olfactory-cortex
            - *hippocampus
            archicortex:
            paleocortex:
        cerebral cortex: &neopallium
            names:
                - neopallium
                - isocortex
                - homotypic cortex
            characteristics:
                - pyramidal neurons: 80% #excitatory
                - interneurons: 20% #inhibitory
                - sulci #deep grooves
                - gyri #wrinkles
                - gender differences:
                    male:
                        neurons: 23 billion
                        matter: grey #primarily more grey matter
                    female:
                        neurons: 19 billion
                        matter: white #primarily more white matter
            notes:
            - "sulci and gyri allow more cortical columns to be packed into the human brain, allowing for improved working memory"
            - "in humans, 90% of the cerebral cortex is neocortex"
            - "all mammals have six layers of neocortex"
            layers: #of the neocortex
                1:
                2:
                3:
                4: #receives sensory information from the thalamus
                5:
                6:
            neocortical columns:
                diameter: 0.5mm
                depth: 2mm
                neurons: 60k #FIXME: see Markram's claim
                total: 500k #500k neocortical columns in the human brain
            frontal lobe:
                cortex:
                    precentral gyrus:
                        name: primary motor cortex
                        abbreviation: M1
                        shares:
                        - *brodmann-area-4
                brodmann area 4: &brodmann-area-4
                    prefrontal cortex:
                    supplementary motor cortex:
                    premotor cortex:
                        frontal eye fields: &frontal-eye-fields
                            description: "initation of eye movements; voluntary saccades; pursuit eye movements"
                            abbreviation: FEF
                            shares:
                            - *superior-colliculus-&-medial-dorsal-nucleus-&-FEF-ascending-pathway
                            characteristics:
                            - visual response time: 40..60ms
                            - auditory response time: 30..60ms
                    see also:
                        - *brodmann-area-6
                        - *brodmann-area-8
                        - *brodmann-area-9
                        - *brodmann-area-10
                        - *brodmann-area-11
                        - *brodmann-area-12
                        - *brodmann-area-24
                        - *brodmann-area-25
                        - *brodmann-area-32
                        - *brodmann-area-33
                        - *brodmann-area-44
                        - *brodmann-area-45
                        - *brodmann-area-46
                        - *brodmann-area-47
                gyrus:
                    superior frontal gyrus:
                    middle frontal gyrus:
                    inferior frontal gyrus:
                anterior to:
                - *parietal-lobe
                - *temporal-lobe
                above to:
                - *temporal-lobe
                disease:
                    - schizophrenia: !disease
                        indicators:
                        - poor axon myelination
                connections: #don't know if I like this section or not
                    - thalamic connection: *thalamus
                        neurotransmitters:
                        - dopamine
            temporal lobe: &temporal-lobe
                cortex:
                    primary auditory cortex:
                        abbreviation: A1
                        shares:
                        #41 & 42 "sort of" correspond to A1
                        - *brodmann-area-41
                        - *brodmann-area-42
                    A2:
                    inferior temporal cortex:
                    posterior inferior temporal cortex:
                gyrus:
                    superior temporal gyrus:
                    middle temporal gyrus:
                    inferior temporal gyrus:
                    fusiform gyrus:
                    parahippocampal gyrus:
                brodmann area:
                    see also:
                    - *brodmann-area-9
                    - *brodmann-area-20
                    - *brodmann-area-21
                    - *brodmann-area-22
                    - *brodmann-area-27
                    - *brodmann-area-34
                    - *brodmann-area-35
                    - *brodmann-area-36
                    - *brodmann-area-37
                    - *brodmann-area-38
                    - *brodmann-area-41
                    - *brodmann-area-42
            parietal lobe: &parietal-lobe
                cortex:
                    primary somatosensory cortex:
                        abbreviation: S1
                        shares:
                        - *brodmann-area-1
                        - *brodmann-area-2
                        - *brodmann-area-3
                    S2:
                    posterior parietal cortex:
                gyrus:
                    postcentral gyrus: &primary-sensory-cortex
                        name: primary somesthetic area
                        links:
                        - !wikipedia "[[primary sensory cortex]]"
                        - !wikipedia "[[postcentral gyrus]]"
                other:
                    precuneus:
                brodmann areas:
                    shares:
                    - *brodmann-area-1
                    - *brodmann-area-2
                    - *brodmann-area-3
                    - *brodmann-area-5
                    - *brodmann-area-7
                    - *brodmann-area-23
                    - *brodmann-area-26
                    - *brodmann-area-29
                    - *brodmann-area-31
                    - *brodmann-area-39
                    - *brodmann-area-40
                    - *primary-sensory-cortex
            occipital lobe:
                cortex:
                    primary visual cortex: &primary-visual-cortex
                        abbreviation: V1
                        shares:
                        - *brodmann-area-17
                    V2:
                gyrus:
                    lateral occipital gyrus:
                other:
                    cuneus:
                brodmann areas:
                    shares:
                    - *brodmann-area-17
                    - *brodmann-area-18
                    - *brodmann-area-19
            insular cortex:
            cingulate cortex:
                subgenual area 25:
                anterior cingulate:
                posterior cingulate:
                retrosplenial cortex: &retrosplenial-cortex
                    name: retrosplenial region
                    links:
                    - !wikipedia "[[retrosplenial region]]"
                indusium griseum:
                brodmann areas:
                    shares:
                    - *brodmann-area-23
                    - *brodmann-area-24
                    - *brodmann-area-26
                    - *brodmann-area-29
                    - *brodmann-area-30
                    - *brodmann-area-31
                    - *brodmann-area-32
                    - *retrosplenial-cortex
neural pathways:
    arcuate fasciculus:
    cerebral peduncle:
    corpus callosum:
    pyramidal tract:
        name: corticospinal tract
    major dopamine pathways:
        mesocortical pathway:
        mesolimbic pathway:
        nigrostriatal pathway:
        tuberinfundibular pathway:
    major serotonin pathways:
        raphe nuclei:
    motor systems:
        name: volition #wtf wikipedia?
        muscle:
            extrapyramidal systems:
            pyramidal tract:
            alpha system:
            gamma system:
    nerves:
        spinal cord:
        brain stem:
            cranial nerves:
                cranial nerve: &cranial-nerve-0
                    id: 0
                olfactory nerve: &cranial-nerve-1
                    id: 1
                optic nerve: &cranial-nerve-2
                    id: 2
                occulomotor nerve: &cranial-nerve-3
                    id: 3
                trochlear nerve: &cranial-nerve-4
                    id: 4
                trigeminal nerve: &cranial-nerve-5
                    id: 5
                abducens nerve: &cranial-nerve-6
                    id: 6
                facial nerve: &cranial-nerve-7
                    id: 7
                vestibulochoclear nerve: &cranial-nerve-8
                    id: 8
                glossopharyngeal nerve: &cranial-nerve-9
                    id: 9
                vagus nerve: &cranial-nerve-10
                    id: 10
                accessory nerve: &cranial-nerve-11
                    id: 11
                hypoglossal nerve: &cranial-nerve-12
                    id: 12
neuroendocrine system:
    HPA axis:
circulatory systems:
    name: vascular systems
    venous systems:
    arterial systems:
        name: circle of Willis
    blood-brain barrier:
    blood-cerebrospinal fluid barrier:
dural meningeal system:
    brain-cerebrospinal fluid barrier:
    meningeal coverings:
        dura mater:
        arachnoid mater:
        pia mater
    epidural space:
    subdural space:
    arachnoid septum:
    ventricular system:
        cerebrospinal fluid:
            subarachnoid space:
                third ventricle:
                fourth ventricle:
                lateral ventricles:
                    anterior horn:
                    body of lateral ventricle:
                    inferior horn:
                    posterior horn:
                superior cistern:
                cistern of lamina terminalis:
                chaismatic cistern:
                interpeduncular cistern:
                pontine cistern:
                cisterna magna:
            spinal subarachnoid space:
mesolimbic dopaminergic pathway:
    ventral tegmental areas: *ventral-tegmental-areas
    nucleus acumbens: *nucleus-acumbens
        localization: !in ventral striatum #the nucleus acumbens is in the ventral striatum
        characteristics:
        - neurons:
            name: medium spiny neurons
            references:
            - "Zhang TA, Maldve RE, Morrisett RA. 2006. Coincident signaling in mesolimbic structures underlying alcohol reinforcement. Biochemical Pharmacology 72:919-27"
            - "Purves D et al. 2008. Neuroscience. Sinauer 4ed. 754-56"
        shell:
            name: limbic region
        core:
            name: motor region
        medium spiny neurons:
            dendrites:
                neurotransmitters:
                - dopamine
                - glutamate
                from:
                - dopaminergic neurons of the ventral-tegmental-areas
                - glutamatergic neurons of the hippocampus
                - glutamatergic neurons of the amygdala
                - glutamatergic neurons of the medial prefrontal cortex
            axons:
                neurotransmitters:
                - GABA #medium spiny neurons mostly release GABA
                to:
                - *ventral-pallidium #part of the basal ganglia

neurotransmitters:
    dopamine:
        name:
        - "2-(3,4-dihydroxyphenyl)ethylamine"
        - "3,4-dihydroxyphenethylamine"
        - "3-hydroxytyramine"
        - "DA"
        - "intropin"
        - "revivan"
        - "oxytyramine"
        formula: C8H11NO2
        molar mass: 153.18 g/mol
        melting point: 128 °C, 401 K, 262 °F
        solubility in water: 60.0 g/100 ml
        precursor: *levodopa
        characteristics:
        - !blood-brain-barrier blocked #doesn't pass the barrier
        #not so sure about the following syntax.
        - !inhibits *anterior-pituitary-prolactin
        produced by: #from
        - *substantia-nigra
        - *ventral-tegmental-areas
        #dopamine is released by the hypothalamus as a neurohormone
        - *hypothalamus
        inhibits:
        - *anterior-pituitary-prolactin
        links:
        - !wikipedia "[[dopamine]]"
        - !cas 51-61-6
        - !pubchem 681
        - !chemspider 661
        notes:
        - "Administration of the dopamine precursor levodopa enhances learning in healthy subjects and stroke patients"
neurotransmitter receptors:
    dopamine receptors:
        D1:
        D2:
        D3:
        D4:
        D5:
levodopa: &levodopa
    names:
    - "L-DOPA"
    - "levodopa"
    - "(S)-2-amino-3-(3,4-dihydroxyphenyl) propanoic acid"
    links:
    - !wikipedia "[[L-DOPA]]"
    - !cas 59-92-7
    - !atc N04BA01
    - !pubchem 6047
    - !drugbank APRD00309
    - !chemspider 5824
    formula: C9H11NO4 
    molar mass: 197.19 g/mol
    pharmokinetic data:
        half life: 0.75–1.5 hours
        excretion: renal 70–80%
    legal status: OTC
    routes: *oral

#might as well
routes of administration:
    links:
    - "http://web.archive.org/web/20071022035644/http://www.fda.gov/cder/dsm/DRG/drg00301.htm" #where most of this is from
    entereal:
        description: "desired effect is systemic (non-local), substance is given via the digestive tract."
        oral: &oral
            fda code: 001
            nci concept id: C38288
        gastric feeding tube:
        duodenal feeding tube:
        gastrostomy:
        rectal:
    topical:
        description: "local effect, substance is applied directly where its action is desired."
        epicutaneous:
            description: "application onto the epidermis (skin)"
        inhalation:
        enema:
        eye drops:
        ear drops:
        intranasal:
        vaginal: #e.g., topical estrogens
    parenteral:
        description: "desired effect is systemic, substance is given by routes other than the digestive tract."
eye movements:
    see:
    - *supplementary-eye-fields
    - *intraparietal-sulci
    - *superior-colliculi
    - *frontal-eye-fields
Broca speech area: &broca-speech
    localization: left #left brodmann area 44
    shares:
    - *brodmann-area-44
Broca language area: &broca-language
    localization: left #left brodmann area 45
    shares:
    - *brodmann-area-45
brodmann areas:
    1: *primary-somatosensory-cortex
    2: *primary-somatosensory-cortex
    3: *primary-somatosensory-cortex
    4: *primary-motor-cortex
    5: *somatosensory-association-cortex
    6:
        shares:
        - *premotor-cortex
        #secondary motor cortex or supplementary motor area
        - *secondary-motor-cortex
        - *supplementary-motor-area
    7: *somatosensory-association-cortex
    8: *frontal-eye-fields
    9: *dorsolateral-prefrontal-cortex
    10: *anterior-prefrontal-cortex 
        #most rostral part of superior and middle frontal gyri
    11: *orbitofrontal-area
        #orbital and rectus gyri, plus part of the rostral part of the superior frontal gyrus
    12: *orbitofrontal-area
        #used to be part of BA11, refers to the area between the superior frontal gyrus and the inferior rostral sulcus
    13: *insular-cortex
    14: *insular-cortex
    15: *anterior-temporal-lobe
    #FIXME: 16?
    17: *primary-visual-cortex
        #V1
    18: *secondary-visual-cortex
        #V2
    19: *associative-visual-cortex
        #V3
    20: *inferior-temporal-gyrus
    21: *middle-temporal-gyrus
    22: *superior-temporal-gyrus
    23: *posterior-cingulate-cortex
        localization: ventral #ventral posterior-cingulate cortex
    24: *anterior-cingulate-cortex
        localization: ventral #ventral anterior cingulate cortex
    25: *subgenual-cortex
    26: *ectosplenial-area
    27: *piriform-cortex
    28: *entorhinal-cortex
        localization: posterior
    29: *retrosplenial-cingulate-cortex
    30: *cingulate-cortex
        #er, part of it
    #FIXME: maybe should be *posterior-cingulate-cortex?
    31: *cingulate-cortex
        localization: dorsal posterior
    32: *cingulate-cortex
        localization: dorsal anterior
    33: *cingulate-cortex
        localization: anterior
    34: *entorhinal-cortex
        shares:
        - *parahippocampal-gyrus
        localization: anterior
    35: *perirhinal-cortex
        shares:
        - *parahippocampal-gyrus
    36: *perirhinal-cortex
        shares:
        - *parahippocampal-gyrus
    37: *fusiform-gyrus
    38: *temporopolar-area
        #rostral parat of the superior and middle temporal gyri
        localization: rostral
        shares:
        - *superior-temporal-gyri
        - *middle-temporal-gyri
    39: *angular-gyrus
        notes:
        - "considered by some to be part of Wernicke's area"
        shares:
        - *wernicke-area
    40: *supramarginal-gyrus
        notes:
        - "considered by some to be part of Wernicke's area"
        shares:
        - *wernicke-area
    41: *primary-association-cortex
    42: *auditory-association-cortex
    43: *subcentral-area
        notes:
        - "between insula and post/precentral gyrus"
    44: *pars-opercularis
        shares:
        - *broca-area
    45: *pars-triangularis
        shares:
        - *broca-area
    46: *prefrontal-cortex
        localization: dorsolateral
    #47 - inferior prefrontal gyrus
    47: *gyrus
        localization: inferior prefrontal
    48: *retrosubicular-area
        notes:
        - "a small part of the medial surface of the temporal lobe"
        shares:
        - *medial-surface-of-the-temporal-lobe
    52: *parainsular-area
        notes:
        - "at the junction of the temporal lobe and the insula"
        shares:
        - !junction
            - *temporal-lobe
            - *insula

sulci:
gyri:
    notes:
    - "increased left frontal lobe gyrification in autism"
    - "schizophrenia development with increased gyrification in brodmann areas 9 & 10"
    -
parkinsons: &parkinsons
    names:
    - "Parkinson's disease"
    - "paralysis of the will"
adderall: &adderall
    mechanisms of action:
    - "enhanced dopaminergic activity, primarily in the mesolimbic dopaminergic pathway"
    - "binds to the dopamine transporter (DAT) and blocks the transporter's ability to clear dopamine (DA) from the synapse"
    - "In addition, amphetamine is transported into the cell, which leads to dopamine efflux (DA is transported out of the cell and into the synaptic space via reverse transport of the DAT)."
    - "inhibits monoamine oxidase A and monoamine oxidase B (MAO-A and MAO-B)"
    - "releases more neurotransmitters into the synapse, and prolongs their availibility by slowing their removal"
    - "blocks reuptake of dopamine and norepinephrine"
    - "inhibits reuptake of monoamines"
    - "Amphetamines are similar in structure to dopamine, and so can enter the terminal button of the presynaptic neuron via its dopamine transporters as well as by diffusing through the neural membrane directly. once inside the presynaptic neuron, amphetamines force the dopamine molecules out of their storage vesicles and expel them into the synaptic gap by making the dopamine transporters work in reverse."
    - "Amphetamines may also excite dopaminergic neurons via glutamate neurons. Amphetamines would thus remove an inhibiting effect due to metabotropic glutamate receptors. By thus releasing this natural brake, amphetamines would make the dopaminergic neurons more readily excitable."
    - "both the releasing AMPH and uptake-inhibiting actions of MPH and AMPH and related compounds are mediated by the catecholamine uptake transporter which has been studied for over 40 years"
    - "DA transporter protein direction is reversed by the presence of AMPH; once the DA transporter protein takes AMPH into the cell, it releases AMPH and takes DA out of the cell on its journey back towards the outside of the cell"
    - ""
    - "alternates between salts every 120 minutes"
    side effects:
        - "dry mouth causes bad breath"
    inhibits:
        - MAO-A
        - MAO-B
methylphenidate:
    abbreviation: MPH
    notes:
    - "one protein (SNAP 25) is responsible for action-potential-related migration of presynaptic catecholamine vesicles, which, when this protein is altered, results in a lack of MPH responsiivity" #Steffensen SC, Henriksen SJ, Wilson MC. Transgenic rescue of SNAP-25 restores dopamine-modulated synaptic transmission in the coloboma mutant. Brain Res 1999;847:186-195