Abstract:
:Two-Photon Processor (TPP) is a versatile, ready-to-use, and freely available software package in MATLAB to process data from in vivo two-photon calcium imaging. TPP includes routines to search for cell bodies in full-frame (Search for Neural Cells Accelerated; SeNeCA) and line-scan acquisition, routines for calcium signal calculations, filtering, spike-mining, and routines to construct parametric fields. Searching for somata in artificial in vivo data, our algorithm achieved better performance than human annotators. SeNeCA copes well with uneven background brightness and in-plane motion artifacts, the major problems in simple segmentation methods. In the fast mode, artificial in vivo images with a resolution of 256 × 256 pixels containing ≈ 100 neurons can be processed at a rate up to 175 frames per second (tested on Intel i7, 8 threads, magnetic hard disk drive). This speed of a segmentation algorithm could bring new possibilities into the field of in vivo optophysiology. With such a short latency (down to 5-6 ms on an ordinary personal computer) and using some contemporary optogenetic tools, it will allow experiments in which a control program can continuously evaluate the occurrence of a particular spatial pattern of activity (a possible correlate of memory or cognition) and subsequently inhibit/stimulate the entire area of the circuit or inhibit/stimulate a different part of the neuronal system. TPP will be freely available on our public web site. Similar all-in-one and freely available software has not yet been published.
journal_name
J Neurophysioljournal_title
Journal of neurophysiologyauthors
Tomek J,Novak O,Syka Jdoi
10.1152/jn.00087.2013subject
Has Abstractpub_date
2013-07-01 00:00:00pages
243-56issue
1eissn
0022-3077issn
1522-1598pii
jn.00087.2013journal_volume
110pub_type
杂志文章abstract::There is evidence that postural instability associated with Parkinson's disease (PD) is not adequately improved by levodopa, implying involvement of nondopaminergic pathways. However, the mechanisms contributing to postural instability have yet to be fully identified and tested for their levodopa responsiveness. In th...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.00996.2015
更新日期:2016-08-01 00:00:00
abstract::1. Antidromic stimulation of the visual radiation of cats has been used to investigate the possibility that some of the activity in principal geniculate cells following an optic tract stimulus is antidromic. Single spikes were selected from two classes of poststimulus activity to condition the antidromic test spike--t...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.1977.40.1.9
更新日期:1977-01-01 00:00:00
abstract::1. Human flexor reflex (HFR) responses were elicited during ergometer cycling in neurologically intact humans with the objective of understanding the influence of lower limb muscle activity on phase-dependent reflex modulation during movement. The experimental setup permitted control over background muscle activity an...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.1993.69.4.1212
更新日期:1993-04-01 00:00:00
abstract::The inferior olive is the sole source of the climbing fiber system, one of the two major afferent systems of the cerebellum; however, its exact role remains unknown. A longstanding hypothesis is that the inferior olive with its unique intrinsic rhythmic firing properties mediates motor timing. However, direct evidence...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.00961.2007
更新日期:2008-09-01 00:00:00
abstract::Extracellular calcium is critical for many neural functions, including neurotransmission, cell adhesion, and neural plasticity. Experiments have shown that normal neural activity is associated with changes in extracellular calcium, which has motivated recent computational work that employs such fluctuations in an info...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.2000.83.3.1329
更新日期:2000-03-01 00:00:00
abstract::Slow covariations in neuronal resting potentials can lead to artefactually fast cross-correlations in their spike trains. J. Neurophysiol. 80: 3345-3351, 1998. A model of two lateral geniculate nucleus (LGN) cells, which interact only through slow (tens of seconds) covariations in their resting membrane potentials, is...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.1998.80.6.3345
更新日期:1998-12-01 00:00:00
abstract::Tinnitus and hyperacusis are common, burdensome sources of morbidity with a high rate of co-occurrence. Knudson et al. (J Neurophysiol 112: 3197-3208, 2014) demonstrated that efferent suppression of cochlear activity by the medial olivocochlear system is enhanced in individuals with tinnitus and/or hyperacusis. Their ...
journal_title:Journal of neurophysiology
pub_type: 评论,杂志文章
doi:10.1152/jn.00948.2014
更新日期:2015-11-01 00:00:00
abstract::1. Pulse inputs (similar to tendon jerks) were applied to the human ankle joint with the use of a hydraulic actuator. Inputs of only 1-2 degrees could elicit large responses (> 20% of maximum voluntary contraction). The magnitude of the response depended nonlinearly on a number of factors: the amplitude, direction, an...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.1995.73.1.65
更新日期:1995-01-01 00:00:00
abstract::When identical stimuli are presented in rapid temporal succession, neural responses to the second stimulation are often weaker than those observed for the first. This phenomenon is termed sensory gating and is believed to be an adaptive feature that helps prevent higher-order cortical centers from being flooded with u...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.00260.2017
更新日期:2017-10-01 00:00:00
abstract::Across the rostrocaudal (RC) axis of the Xenopus tadpole optic tectum exists a developmental gradient. This gradient has served as a useful model to study many aspects of synapse and dendrite maturation. To compliment these studies, we characterized how the intrinsic excitability, the ease in which a neuron can fire a...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.00068.2014
更新日期:2014-10-01 00:00:00
abstract::The basal ganglia participate in motor functions and are implicated in the pathophysiology of movement disorders. It has been shown in primates that the activity of many neurons in one of the basal ganglia output nuclei, the internal segment of the globus pallidus, changes with active or passive movements. The involve...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.01180.2002
更新日期:2004-02-01 00:00:00
abstract::Experience-dependent modification in the electrical properties of central neurons is a form of intrinsic plasticity that occurs during development and has been observed following behavioral learning. We report a novel form of intrinsic plasticity in hippocampal CA1 pyramidal neurons mediated by the KV7/KCNQ and CaV1/L...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.90346.2008
更新日期:2008-10-01 00:00:00
abstract::Contrasting theories of visual attention have emphasized selection by spatial location, individual features, and whole objects. We used functional magnetic resonance imaging to ask whether and how attention to one feature of an object spreads to other features of the same object. Subjects viewed two spatially superimp...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.00828.2012
更新日期:2013-11-01 00:00:00
abstract::Propriospinal interneurons in the thoracic spinal cord have vital roles not only in controlling respiratory and trunk muscles, but also in providing possible substrates for recovery from spinal cord injury. Intracellular recordings were made from such interneurons in anesthetized cats under neuromuscular blockade and ...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.00738.2010
更新日期:2011-02-01 00:00:00
abstract::We elicited repetitive discharge in hypoglossal motoneurons recorded in slices of rat brain stem using a combination of a suprathreshold injected current step with superimposed noise to mimic the synaptic drive likely to occur during physiological activation. The effects of repetitive en mass stimulation of afferent n...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.1999.82.2.829
更新日期:1999-08-01 00:00:00
abstract::During priming of pop-out, performance at discriminating a pop-out feature target in visual search is affected by whether the target on the previous trial was defined by the same feature as on the upcoming trial. Recent studies suggest that priming of pop-out relies on attentional processes. With the use of simultaneo...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.00121.2011
更新日期:2011-12-01 00:00:00
abstract::In quadrupeds, the dorsal-side-up body orientation during standing is maintained due to a postural system that is driven by feedback signals coming mainly from limb mechanoreceptors. In caudally decerebrated (postmammillary) rabbits, the efficacy of this system is considerably reduced. In this paper, we report that th...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.00042.2012
更新日期:2012-06-01 00:00:00
abstract::Unitary pallido-nigral synaptic currents were measured using optogenetic stimulation, which activated up to three unitary synaptic inputs to each substantia nigra pars reticulata (SNr) cell. Episodic barrages of synaptic conductances were generated based on in vivo firing patterns of globus pallidus pars externa (GPe)...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.00678.2019
更新日期:2020-02-01 00:00:00
abstract::Intrathecally applied nicotine reduces bradykinin-induced plasma extravasation (BK-induced PE) in the rat knee joint. This depression is mediated by the hypothalamo-pituitary-adrenal (HPA) axis and is enhanced by interruption of impulse traffic in afferents of the abdominal vagus nerve. Like intrathecal nicotine, elec...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.1997.78.3.1285
更新日期:1997-09-01 00:00:00
abstract::Distractions affect postural control, but this mechanism is not well understood. Diversion of resources during cognitive stress may lead to decreased motor drive and postural muscle tone. This may appear as decreased postural stiffness and increased postural sway amplitude. We hypothesized that dual tasking leads to d...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.00820.2009
更新日期:2010-12-01 00:00:00
abstract::Recognition of sound patterns must be largely independent of level and of masking or jamming background sounds. Auditory patterns of relevance in numerous environmental sounds, species-specific vocalizations and speech are frequency modulations (FM). Level-dependent activation of the human auditory cortex (AC) in resp...
journal_title:Journal of neurophysiology
pub_type: 临床试验,杂志文章
doi:10.1152/jn.00187.2001
更新日期:2002-01-01 00:00:00
abstract::Prominent arginine-vasopressin (AVP) binding and AVP V(1) type receptors are expressed early in the developing rat spinal cord. We sought to characterize their influence on neural excitability by using patch-clamp techniques to record AVP-induced responses from a population of motoneurons and interneurons in neonatal ...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.2001.86.3.1202
更新日期:2001-09-01 00:00:00
abstract::Cold-sensitive and nociceptive neural pathways interact to shape the quality and intensity of thermal and pain perception. Yet the central processing of cold thermosensation in the human brain has not been extensively studied. Here, we used magnetoencephalography and EEG in healthy volunteers to investigate the time c...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.00843.2016
更新日期:2017-05-01 00:00:00
abstract::1. The initial objective of this study was to determine whether respiratory-related neural assemblies exist in the brain stem midline. A second goal was to seek evidence for concurrent relationships among the neurons that could generate the detected synchrony. 2. Experiments were conducted on anesthetized, paralyzed, ...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.1992.67.4.905
更新日期:1992-04-01 00:00:00
abstract::The receptive field organization of nociceptive neurons suggests that noxious information may be encoded by population-based mechanisms. Electrophysiological evidence of population coding mechanisms has remained limited. However, psychophysical studies examining interactions between multiple noxious stimuli can provid...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.91350.2008
更新日期:2009-12-01 00:00:00
abstract::Cortical pyramidal cells are constantly bombarded by synaptic activity, much of which arises from other cortical neurons, both in normal conditions and during epileptic seizures. The action potentials generated by barrages of synaptic activity may exhibit a variable site of origin. Here we performed simultaneous whole...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.00922.2006
更新日期:2007-01-01 00:00:00
abstract::1. The horizontal eye movements induced by acceleration along the interaural axis were recorded from five monkeys (Macaca mulatta) by the use of the electromagnetic search-coil technique. Animals sat on a sled that was moved briefly in darkness along a linear track (bell-shaped acceleration profile: peak, 400 mm/s2; d...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.1991.66.3.851
更新日期:1991-09-01 00:00:00
abstract::1. The physiological properties of cells in the superior olivary complex (SOC) were studied in 400-microns brain slices taken through the mouse auditory brain stem. Coronal sections were prepared from fresh brain tissue and were placed fully submerged in an oxygenated saline solution. The boundaries of the medial nucl...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.1991.65.2.230
更新日期:1991-02-01 00:00:00
abstract::1. A quantal analysis of transmission at the identified molluscan synapse, V2-RPr1, was performed during development. The study was intended to determine the pre- and postsynaptic contributions to the marked changes in transmitter release described in the previous report. 2. The success of the quantal analysis was pre...
journal_title:Journal of neurophysiology
pub_type: 杂志文章
doi:10.1152/jn.1988.60.6.2211
更新日期:1988-12-01 00:00:00
abstract::In this study, the representation of taste in the orbitofrontal cortex was investigated to determine whether or not a pleasant and an aversive taste have distinct or overlapping representations in this region. The pleasant stimulus used was sweet taste (1 M glucose), and the unpleasant stimulus was salt taste (0.1 M N...
journal_title:Journal of neurophysiology
pub_type: 临床试验,杂志文章
doi:10.1152/jn.2001.85.3.1315
更新日期:2001-03-01 00:00:00