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Transcriptome analysis of hippocampal subfields identifies gene expression profiles associated with long-term active place avoidance memory

https://doi.org/10.1101/2020.02.05.935759

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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PKMζ maintains 1‐day‐ and 6‐day‐old long‐term object location but not object identity memory in dorsal hippocampus

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PKMζ is necessary and sufficient for synaptic clustering of PSD‐95

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Hippocampal transcriptomic responses to enzyme‐mediated cellular dissociation

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Computational constraints suggest the need for two distinct input systems to the hippocampal CA3 network

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ggplot2: Elegant Graphics for Data Analysis

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Neurogenomics of Behavioral Plasticity

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Both PKMζ and KIBRA are closely related to reference memory but not working memory in a T-maze task in rats

inferredcites →https://doi.org/10.1016/0092-8674(94)90386-7openalex-snapshot

C/EBP is an immediate-early gene required for the consolidation of long-term facilitation in Aplysia

inferredcites →https://doi.org/10.1016/j.bbr.2013.09.039openalex-snapshot

Hippocampal protein kinase C family members in spatial memory retrieval in the mouse

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Protein kinase M zeta regulation of Na/K ATPase: A persistent neuroprotective mechanism of ischemic preconditioning in hippocampal slice cultures

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Astrocyte-Neuron Lactate Transport Is Required for Long-Term Memory Formation

inferredcites →https://doi.org/10.1016/j.cell.2014.03.058openalex-snapshot

Npas4 Regulates Excitatory-Inhibitory Balance within Neural Circuits through Cell-Type-Specific Gene Programs

inferredcites →https://doi.org/10.1016/j.celrep.2016.07.030openalex-snapshot

Distinct Roles of PKCι/λ and PKMζ in the Initiation and Maintenance of Hippocampal Long-Term Potentiation and Memory

inferredcites →https://doi.org/10.1016/j.neuron.2008.10.004openalex-snapshot

Fragile X Syndrome: Loss of Local mRNA Regulation Alters Synaptic Development and Function

inferredcites →https://doi.org/10.1016/j.neuron.2017.07.013openalex-snapshot

Cell-Type-Specific Translation Profiling Reveals a Novel Strategy for Treating Fragile X Syndrome

inferredcites →https://doi.org/10.1016/j.neuron.2017.09.010openalex-snapshot

Memory Erasure Experiments Indicate a Critical Role of CaMKII in Memory Storage

inferredcites →https://doi.org/10.1016/j.neuron.2017.09.057openalex-snapshot

Regulation of mRNA Translation in Neurons—A Matter of Life and Death

inferredcites →https://doi.org/10.1016/j.neuron.2017.12.043openalex-snapshot

Normal CA1 Place Fields but Discoordinated Network Discharge in a Fmr1-Null Mouse Model of Fragile X Syndrome

inferredcites →https://doi.org/10.1016/j.neuron.2018.01.026openalex-snapshot

Npas4 Is a Critical Regulator of Learning-Induced Plasticity at Mossy Fiber-CA3 Synapses during Contextual Memory Formation

inferredcites →https://doi.org/10.1016/j.neuropharm.2006.07.002openalex-snapshot

Actin polymerization regulates the synthesis of PKMζ in LTP

inferredcites →https://doi.org/10.1016/j.nlm.2016.07.008openalex-snapshot

Persistent increased PKMζ in long-term and remote spatial memory

inferredcites →https://doi.org/10.1016/j.nlm.2016.08.015openalex-snapshot

Persistent modifications of hippocampal synaptic function during remote spatial memory

inferredcites →https://doi.org/10.1016/j.tins.2011.12.007openalex-snapshot

Memory enhancement: consolidation, reconsolidation and insulin-like growth factor 2

inferredcites →https://doi.org/10.1016/s0165-0270(00)00288-0openalex-snapshot

Passive and active place avoidance as a tool of spatial memory research in rats

inferredcites →https://doi.org/10.1038/10154openalex-snapshot

Can molecules explain long-term potentiation?

inferredcites →https://doi.org/10.1038/369744a0openalex-snapshot

Glutamate-mediated astrocyte–neuron signalling

inferredcites →https://doi.org/10.1038/nature01262openalex-snapshot

Initial sequencing and comparative analysis of the mouse genome

inferredcites →https://doi.org/10.1038/nature07319openalex-snapshot

Activity-dependent regulation of inhibitory synapse development by Npas4

inferredcites →https://doi.org/10.1038/nature08673openalex-snapshot

Long-term potentiation depends on release of d-serine from astrocytes

inferredcites →https://doi.org/10.1038/nature09667openalex-snapshot

A critical role for IGF-II in memory consolidation and enhancement

inferredcites →https://doi.org/10.1038/nature11028openalex-snapshot

Optogenetic stimulation of a hippocampal engram activates fear memory recall

inferredcites →https://doi.org/10.1038/nature11860openalex-snapshot

Activity-dependent neuronal signalling and autism spectrum disorder

inferredcites →https://doi.org/10.1038/nbt.3519openalex-snapshot

Near-optimal probabilistic RNA-seq quantification

inferredcites →https://doi.org/10.1038/nn.2531openalex-snapshot

PKMζ maintains memories by regulating GluR2-dependent AMPA receptor trafficking

inferredcites →https://doi.org/10.1038/nn.4661openalex-snapshot

Viewpoints: how the hippocampus contributes to memory, navigation and cognition

inferredcites →https://doi.org/10.1038/nn820openalex-snapshot

Memory enhancement and formation by atypical PKM activity in Drosophila melanogaster

inferredcites →https://doi.org/10.1038/nrg3185openalex-snapshot

Insights into the regulation of protein abundance from proteomic and transcriptomic analyses

inferredcites →https://doi.org/10.1038/nrn2949openalex-snapshot

How does PKMζ maintain long-term memory?

inferredcites →https://doi.org/10.1038/nrn3878openalex-snapshot

Disentangling calcium-driven astrocyte physiology

inferredcites →https://doi.org/10.1038/s41586-018-0423-5openalex-snapshot

Autism-like phenotype and risk gene mRNA deadenylation by CPEB4 mis-splicing

inferredcites →https://doi.org/10.1073/pnas.0611396104openalex-snapshot

Cellular scaling rules for primate brains

inferredcites →https://doi.org/10.1073/pnas.1605063113openalex-snapshot

Astrocytic β 2 -adrenergic receptors mediate hippocampal long-term memory consolidation

inferredcites →https://doi.org/10.1073/pnas.94.1.343openalex-snapshot

Place cells and place navigation

inferredcites →https://doi.org/10.1074/jbc.m307065200openalex-snapshot

Protein Kinase Mζ Synthesis from a Brain mRNA Encoding an Independent Protein Kinase Cζ Catalytic Domain

inferredcites →https://doi.org/10.1083/jcb.201401005openalex-snapshot

Neuronal BC RNAs cooperate with eIF4B to mediate activity-dependent translational control

inferredcites →https://doi.org/10.1093/bioinformatics/btl117openalex-snapshot

Pvclust: an R package for assessing the uncertainty in hierarchical clustering

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MultiQC: summarize analysis results for multiple tools and samples in a single report

inferredcites →https://doi.org/10.1093/bioinformatics/btz931openalex-snapshot

ShinyGO: a graphical gene-set enrichment tool for animals and plants

inferredcites →https://doi.org/10.1093/nar/gky1056openalex-snapshot

Mouse Genome Database (MGD) 2019

inferredcites →https://doi.org/10.1093/nar/gky922openalex-snapshot

The mouse Gene Expression Database (GXD): 2019 update

inferredcites →https://doi.org/10.1098/rstb.1971.0078openalex-snapshot

Simple memory: a theory for archicortex

inferredcites →https://doi.org/10.1098/rstb.2013.0288openalex-snapshot

The synaptic plasticity and memory hypothesis: encoding, storage and persistence

inferredcites →https://doi.org/10.1101/644526openalex-snapshot

Expression of c-Fos and Arc in hippocampal region CA1 marks neurons that exhibit learning-related activity changes

inferredcites →https://doi.org/10.1111/jnc.12480openalex-snapshot

KIBRA (KIdney/BRAin protein) regulates learning and memory and stabilizes Protein kinase Mζ

inferredcites →https://doi.org/10.1126/science.1128657openalex-snapshot

Storage of Spatial Information by the Maintenance Mechanism of LTP

inferredcites →https://doi.org/10.1126/science.1144334openalex-snapshot

Rapid Erasure of Long-Term Memory Associations in the Cortex by an Inhibitor of PKMζ

inferredcites →https://doi.org/10.1126/science.1200215openalex-snapshot

Enhancement of Consolidated Long-Term Memory by Overexpression of Protein Kinase Mζ in the Neocortex

inferredcites →https://doi.org/10.1158/0008-5472.can-17-0584openalex-snapshot

The Mouse Tumor Biology Database: A Comprehensive Resource for Mouse Models of Human Cancer

inferredcites →https://doi.org/10.1186/1756-6606-5-14openalex-snapshot

The molecular biology of memory: cAMP, PKA, CRE, CREB-1, CREB-2, and CPEB

inferredcites →https://doi.org/10.1186/s13041-017-0334-7openalex-snapshot

Increased PKMζ activity impedes lateral movement of GluA2-containing AMPA receptors

inferredcites →https://doi.org/10.1186/s13041-018-0420-5openalex-snapshot

What does LTP tell us about the roles of CaMKII and PKMζ in memory?

inferredcites →https://doi.org/10.1186/s13059-014-0550-8openalex-snapshot

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

inferredcites →https://doi.org/10.12688/f1000research.15931.1openalex-snapshot

FastQ Screen: A tool for multi-genome mapping and quality control

inferredcites →https://doi.org/10.1371/journal.pbio.0060318openalex-snapshot

PKMζ Maintains Spatial, Instrumental, and Classically Conditioned Long-Term Memories

inferredcites →https://doi.org/10.1371/journal.pone.0010400openalex-snapshot

PKMζ Inhibition Reverses Learning-Induced Increases in Hippocampal Synaptic Strength and Memory during Trace Eyeblink Conditioning

inferredcites →https://doi.org/10.1371/journal.pone.0011125openalex-snapshot

Erasing Sensorimotor Memories via PKMζ Inhibition

inferredcites →https://doi.org/10.1371/journal.pone.0022867openalex-snapshot

The arouser EPS8L3 Gene Is Critical for Normal Memory in Drosophila

inferredcites →https://doi.org/10.1523/jneurosci.0223-08.2008openalex-snapshot

PKMζ Maintains Late Long-Term Potentiation by N -Ethylmaleimide-Sensitive Factor/GluR2-Dependent Trafficking of Postsynaptic AMPA Receptors

inferredcites →https://doi.org/10.1523/jneurosci.0319-12.2012openalex-snapshot

Inhibition of Protein Kinase Mζ Disrupts the Stable Spatial Discharge of Hippocampal Place Cells in a Familiar Environment

inferredcites →https://doi.org/10.1523/jneurosci.4744-10.2011openalex-snapshot

Protein Kinase M Maintains Long-Term Sensitization and Long-Term Facilitation inAplysia

inferredcites →https://doi.org/10.1523/jneurosci.5612-06.2007openalex-snapshot

Regulation of Protein Kinase Mζ Synthesis by Multiple Kinases in Long-Term Potentiation

inferredcites →https://doi.org/10.18637/jss.v025.i01openalex-snapshot

FactoMineR : An R Package for Multivariate Analysis

inferredcites →https://doi.org/10.25338/b8qs4fopenalex-snapshot

Dataset for the transcriptome analysis of hippocampal subfields identifies gene expression profiles associated with long-term active place avoidance memory

inferredcites →https://doi.org/10.32614/cran.package.apatablesopenalex-snapshot

apaTables: Create American Psychological Association (APA) Style Tables

inferredcites →https://doi.org/10.32614/cran.package.cowplotopenalex-snapshot

cowplot: Streamlined Plot Theme and Plot Annotations for 'ggplot2'

inferredcites →https://doi.org/10.32614/cran.package.factoextraopenalex-snapshot

factoextra: Extract and Visualize the Results of Multivariate Data Analyses

inferredcites →https://doi.org/10.32614/r.manualsopenalex-snapshot

R: A Language and Environment for Statistical Computing

inferredcites →https://doi.org/10.4303/jdar/235669openalex-snapshot

Inhibition of Protein Kinase Mζ (PKMζ) in the Mesolimbic System Alters Cocaine Sensitization in Rats

inferredcites →https://doi.org/10.5281/zenodo.1068355openalex-snapshot

raynamharris/IntegrativeProjectWT2015: GitHub Repository for the Integrative WT 2015 Project

inferredcites →https://doi.org/10.7554/elife.14846openalex-snapshot

Compensation for PKMζ in long-term potentiation and spatial long-term memory in mutant mice

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1007/s11055-024-01749-wopenalex-snapshot

Changes in gene expression in dorsal and ventral CA1 areas and dentate gyrus in male mice hippocampus due to context fear conditioning

inferred← citeshttps://doi.org/10.1111/ejn.15137openalex-snapshot

Persistent increases of PKMζ in memory‐activated neurons trace LTP maintenance during spatial long‐term memory storage

inferred← citeshttps://doi.org/10.1134/s0006297922110037openalex-snapshot

New Context Significantly Changes Expression of Irs2 Gene in Hippocampal Areas

inferred← citeshttps://doi.org/10.3389/fnmol.2024.1386239openalex-snapshot

Spatially resolved transcriptomic signatures of hippocampal subregions and Arc-expressing ensembles in active place avoidance memory

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