An electrophysiological model of GABAergic double bouquet cells (Chrysanthidis et al. 2019)

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Accession:257610
We present an electrophysiological model of double bouquet cells (DBCs) and integrate them into an established cortical columnar microcircuit model that implements a BCPNN (Bayesian Confidence Propagation Neural Network) learning rule. The proposed architecture effectively solves the problem of duplexed learning of inhibition and excitation by replacing recurrent inhibition between pyramidal cells in functional columns of different stimulus selectivity with a plastic disynaptic pathway. The introduction of DBCs improves the biological plausibility of our model, without affecting the model's spiking activity, basic operation, and learning abilities.
Reference:
1 . Chrysanthidis N, Fiebig F, Lansner A (2019) Introducing double bouquet cells into a modular cortical associative memory model Journal of Computational Neuroscience
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Model Information (Click on a link to find other models with that property)
Model Type: Realistic Network;
Brain Region(s)/Organism:
Cell Type(s): Neocortex U1 interneuron basket PV GABA cell; Neocortex U1 L2/6 pyramidal intratelencephalic GLU cell; Abstract integrate-and-fire adaptive exponential (AdEx) neuron; Neocortex layer 2-3 interneuron; Neocortex bitufted interneuron;
Channel(s):
Gap Junctions:
Receptor(s):
Gene(s):
Transmitter(s):
Simulation Environment: NEST;
Model Concept(s): Learning;
Implementer(s): Chrysanthidis, Nikolaos [nchr at kth.se]; Fiebig, Florian [fiebig at kth.se]; Lansner, Anders [ala at kth.se];
Search NeuronDB for information about:  Neocortex U1 L2/6 pyramidal intratelencephalic GLU cell; Neocortex U1 interneuron basket PV GABA cell;
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ChrysanthidisEtAl2019
BCPNN_NEST_Module
bootstrap-module-100725
autom4te.cache
libltdl
module-100725
sli
aclocal.m4 *
aeif_cond_exp_multisynapse.cpp *
aeif_cond_exp_multisynapse.h *
bcpnn_connection.cpp *
bcpnn_connection.h *
bcpnn_connection_backup.cpp *
bcpnn_connection_backup.h *
bootstrap.sh *
compile *
config.guess *
config.sub *
configure *
configure.ac *
depcomp *
iaf_cond_alpha_bias.cpp *
iaf_cond_alpha_bias.h *
iaf_cond_exp_bias.cpp *
iaf_cond_exp_bias.h *
install-sh *
ltmain.sh *
Makefile.am *
Makefile.in
missing *
pt_module.cpp *
pt_module.h *
pt_module_config.h.in *
pt_module_names.cpp *
pt_module_names.h *
                            
AC_PREREQ(2.52)

AC_INIT(pt_module, 1.0, nest_user@nest-initiative.org)

# These variables are exported to include/config.h
PT_MODULE_MAJOR=1
PT_MODULE_MINOR=0
PT_MODULE_PATCHLEVEL=0

# Exporting source and build directories requires full path names.
# Thus we have to expand.
# Here, we are in top build dir, since source dir must exist, we can just
# move there and call pwd
if test "x$srcdir" = x ; then
  PKGSRCDIR=`pwd`
else
  PKGSRCDIR=`cd $srcdir && pwd`
fi
PKGBUILDDIR=`pwd`

# If this is not called, install-sh will be put into .. by bootstrap.sh
# moritz, 06-26-06
AC_CONFIG_AUX_DIR(.)

AM_INIT_AUTOMAKE(nest, $PT_MODULE_VERSION)

# obtain host system type; HEP 2004-12-20
AC_CANONICAL_HOST

# ------------------------------------------------------------------------
# Handle options
#
# NOTE: No programs/compilations must be run in this section;
#       otherwise CFLAGS and CXXFLAGS may take on funny default
#       values.
#       HEP 2004-12-20
# ------------------------------------------------------------------------

# nest-config
NEST_CONFIG=`which nest-config`
AC_ARG_WITH(nest,[  --with-nest=script	nest-config script including path],
[
  if test "$withval" != yes; then
    NEST_CONFIG=$withval
  else
    AC_MSG_ERROR([--with-nest-config expects the nest-config script as argument. See README for details.])
  fi
])

# -------------------------------------------
# END Handle options
# -------------------------------------------


# does nest-config work
AC_MSG_CHECKING([for nest-config ])
AC_CHECK_FILE($NEST_CONFIG, HAVE_NEST=yes, 
              AC_MSG_ERROR([No usable nest-config was found. You may want to use --with-nest-config.]))
AC_MSG_RESULT(found)

# the following will crash if nest-config does not run
# careful, lines below must not break
AC_MSG_CHECKING([for NEST directory information ])
NEST_PREFIX=`$NEST_CONFIG --prefix`
NEST_CPPFLAGS=`$NEST_CONFIG --cflags`
NEST_COMPILER=`$NEST_CONFIG --compiler`
if test $prefix = NONE; then prefix=`$NEST_CONFIG --prefix`; fi
AC_MSG_RESULT($NEST_CPPFLAGS)

# Set the platform-dependent compiler flags based on the canonical
# host string.  These flags are placed in AM_{C,CXX}FLAGS.  If
# {C,CXX}FLAGS are given as environment variables, then they are
# appended to the set of automatically chosen flags.  After
# {C,CXX}FLAGS have been read out, they must be cleared, since
# system-dependent defaults will otherwise be placed into the
# Makefiles.  HEP 2004-12-20.

# Before we can determine the proper compiler flags, we must know
# which compiler we are using.  Since the pertaining AC macros run the
# compiler and set CFLAGS, CXXFLAGS to system-dependent values, we
# need to save command line/enviroment settings of these variables
# first. AC_AIX must run before the compiler is run, so we must run it
# here.
# HEP 2004-12-21

PT_MODULE_SAVE_CXXFLAGS=$CXXFLAGS

# Must first check if we are on AIX
AC_AIX

# Check for C++ compiler, looking for the same compiler
# used with NEST
AC_PROG_CXX([ $NEST_COMPILER ])

# the following is makeshift, should have the macro set proper
# ML_MODULE_SET_CXXFLAGS
AM_CXXFLAGS=$PT_MODULE_SAVE_CXXFLAGS
CXXFLAGS=

## Configure C environment

AC_PROG_LD
AC_PROG_INSTALL

AC_LIBLTDL_CONVENIENCE	   ## put libltdl into a convenience library
AC_PROG_LIBTOOL		   ## use libtool
AC_CONFIG_SUBDIRS(libltdl) ## also configure subdir containing libltdl

#-- Set the language to C++
AC_LANG_CPLUSPLUS

#-- Look for programs needed in the Makefile
AC_PROG_CXXCPP
AM_PROG_LIBTOOL
AC_PATH_PROGS([MAKE],[gmake make],[make])

# ---------------------------------------------------------------
# Configure directories to be built
# ---------------------------------------------------------------

PKGDATADIR=$datadir/$PACKAGE
PKGDOCDIR=$datadir/doc/$PACKAGE

# set up directories from which to build help
# second line replaces space with colon as separator
HELPDIRS="$PKGSRCDIR $PKGSRCDIR/sli"
HELPDIRS=`echo $HELPDIRS | tr " " ":"`

#-- Replace these variables in *.in
AC_SUBST(HAVE_NEST)
AC_SUBST(NEST_CONFIG)
AC_SUBST(NEST_CPPFLAGS)
AC_SUBST(NEST_COMPILER)
AC_SUBST(NEST_PREFIX)
AC_SUBST(HELPDIRS)
AC_SUBST(PKGSRCDIR)
AC_SUBST(PKGBUILDDIR)
AC_SUBST(PKGDATADIR)
AC_SUBST(PKGDOCDIR)
AC_SUBST(KERNEL)
AC_SUBST(HOST)
AC_SUBST(SED)
AC_SUBST(LD)
AC_SUBST(host_os)
AC_SUBST(host_cpu)
AC_SUBST(host_vendor)
AC_SUBST(AS)
AC_SUBST(CXX)
AC_SUBST(AR)
AC_SUBST(ARFLAGS)
AC_SUBST(CXX_AR)
AC_SUBST(AM_CXXFLAGS)
AC_SUBST(AM_CFLAGS)
AC_SUBST(MAKE)
AC_SUBST(MAKE_FLAGS)
AC_SUBST(INCLTDL)
AC_SUBST(LIBLTDL)

AM_CONFIG_HEADER(pt_module_config.h:pt_module_config.h.in)
AC_CONFIG_FILES(Makefile)

# -----------------------------------------------
# Create output
# -----------------------------------------------
AC_OUTPUT


# -----------------------------------------------
# Report, after output at end of configure run
# Must come after AC_OUTPUT, so that it is 
# displayed after libltdl has been configured
# -----------------------------------------------

echo
echo "-------------------------------------------------------"
echo "Pt_Module Configuration Summary"
echo "-------------------------------------------------------"
echo
echo "C++ compiler        : $CXX"
echo "C++ compiler flags  : $AM_CXXFLAGS"
echo "NEST compiler flags : $NEST_CPPFLAGS"

# these variables will still contain '${prefix}'
# we want to have the versions where this is resolved, too:
eval eval eval  PKGDOCDIR_AS_CONFIGURED=$PKGDOCDIR
eval eval eval  PKGDATADIR_AS_CONFIGURED=$PKGDATADIR

echo
echo "-------------------------------------------------------"
echo
echo "You can build install Pt_Module now, using"
echo "  make"
echo "  make install"
echo
echo "The Pt_Module executable will be installed to:"
echo -n "  "; eval eval echo "$libdir"
echo