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Integrative Transcription Start Site Analysis and Physiological Phenotyping Reveal Torpor-specific Expressions in Mouse Skeletal Muscle

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What this work says

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

inferredcites →https://doi.org/10.1002/1873-3468.12435openalex-snapshot

Torpor‐responsive expression of novel microRNA regulating metabolism and other cellular pathways in the thirteen‐lined ground squirrel, Ictidomys tridecemlineatus

inferredcites →https://doi.org/10.1002/jcp.21952openalex-snapshot

Molecular mechanism underlying muscle mass retention in hibernating bats: Role of periodic arousal

inferredcites →https://doi.org/10.1002/jcp.22850openalex-snapshot

Induction of torpor: Mimicking natural metabolic suppression for biomedical applications

inferredcites →https://doi.org/10.1007/978-1-4939-0805-9_7openalex-snapshot

Detecting Expressed Genes Using CAGE

inferredcites →https://doi.org/10.1007/s00125-013-2879-zopenalex-snapshot

Hypothalamic ATF3 is involved in regulating glucose and energy metabolism in mice

inferredcites →https://doi.org/10.1007/s00360-010-0468-8openalex-snapshot

Regulation of Akt during torpor in the hibernating ground squirrel, Ictidomys tridecemlineatus

inferredcites →https://doi.org/10.1007/s00360-017-1073-xopenalex-snapshot

Comparative tissue transcriptomics highlights dynamic differences among tissues but conserved metabolic transcript prioritization in preparation for arousal from torpor

inferredcites →https://doi.org/10.1007/s11010-008-9875-5openalex-snapshot

Skeletal muscle hexokinase: regulation in mammalian hibernation

inferredcites →https://doi.org/10.1016/0091-3057(88)90289-4openalex-snapshot

An analysis of cocaine effects on locomotor activities and heart rate in four inbred mouse strains

inferredcites →https://doi.org/10.1016/j.brainres.2004.04.008openalex-snapshot

Akt phosphorylation and kinase activity are down-regulated during hibernation in the 13-lined ground squirrel

inferredcites →https://doi.org/10.1016/j.cbpb.2005.08.010openalex-snapshot

Evaluation of the role of AMP-activated protein kinase and its downstream targets in mammalian hibernation

inferredcites →https://doi.org/10.1016/j.cell.2013.04.025openalex-snapshot

One-Step Generation of Mice Carrying Mutations in Multiple Genes by CRISPR/Cas-Mediated Genome Engineering

inferredcites →https://doi.org/10.1016/j.celrep.2015.12.052openalex-snapshot

Mammalian Reverse Genetics without Crossing Reveals Nr3a as a Short-Sleeper Gene

inferredcites →https://doi.org/10.1016/j.cryobiol.2014.08.008openalex-snapshot

Global DNA modifications suppress transcription in brown adipose tissue during hibernation

inferredcites →https://doi.org/10.1016/j.expneurol.2013.01.005openalex-snapshot

Hibernating squirrel muscle activates the endurance exercise pathway despite prolonged immobilization

inferredcites →https://doi.org/10.1016/j.gpb.2015.03.003openalex-snapshot

Regulation of Torpor in the Gray Mouse Lemur: Transcriptional and Translational Controls and Role of AMPK Signaling

inferredcites →https://doi.org/10.1016/j.gpb.2015.03.006openalex-snapshot

Regulation of the PI3K/AKT Pathway and Fuel Utilization During Primate Torpor in the Gray Mouse Lemur, Microcebus Murinus

inferredcites →https://doi.org/10.1016/j.neuron.2016.02.032openalex-snapshot

Involvement of Ca2+-Dependent Hyperpolarization in Sleep Duration in Mammals

inferredcites →https://doi.org/10.1016/j.neuroscience.2013.08.049openalex-snapshot

Chronobiology and nutrition

inferredcites →https://doi.org/10.1016/j.resp.2004.03.014openalex-snapshot

Natural hypometabolism during hibernation and daily torpor in mammals

inferredcites →https://doi.org/10.1016/j.tem.2009.09.005openalex-snapshot

Torpor induction in mammals: recent discoveries fueling new ideas

inferredcites →https://doi.org/10.1016/s0092-8674(04)00293-4openalex-snapshot

Dicers at RISC

inferredcites →https://doi.org/10.1016/s0092-8674(04)00400-3openalex-snapshot

Foxo Transcription Factors Induce the Atrophy-Related Ubiquitin Ligase Atrogin-1 and Cause Skeletal Muscle Atrophy

inferredcites →https://doi.org/10.1016/s0166-4328(01)00289-3openalex-snapshot

Locomotor activity rhythm in inbred strains of mice: implications for behavioural studies

inferredcites →https://doi.org/10.1016/s0378-1119(01)00551-0openalex-snapshot

The molecular biology and nomenclature of the activating transcription factor/cAMP responsive element binding family of transcription factors: activating transcription factor proteins and homeostasis

inferredcites →https://doi.org/10.1038/nature10413openalex-snapshot

Mouse genomic variation and its effect on phenotypes and gene regulation

inferredcites →https://doi.org/10.1038/nature12787openalex-snapshot

An atlas of active enhancers across human cell types and tissues

inferredcites →https://doi.org/10.1038/nature13182openalex-snapshot

A promoter-level mammalian expression atlas

inferredcites →https://doi.org/10.1038/ncomms3212openalex-snapshot

Genome analysis reveals insights into physiology and longevity of the Brandt’s bat Myotis brandtii

inferredcites →https://doi.org/10.1038/ncomms3701openalex-snapshot

Highly confined ions store charge more efficiently in supercapacitors

inferredcites →https://doi.org/10.1038/nmeth.3317openalex-snapshot

HISAT: a fast spliced aligner with low memory requirements

inferredcites →https://doi.org/10.1038/nmeth0306-211openalex-snapshot

CAGE: cap analysis of gene expression

inferredcites →https://doi.org/10.1038/nrm.2015.27openalex-snapshot

Pluripotent stem cells in disease modelling and drug discovery

inferredcites →https://doi.org/10.1038/s41586-018-0218-8openalex-snapshot

Quantitative phosphoproteomic analysis of the molecular substrates of sleep need

inferredcites →https://doi.org/10.1038/srep37011openalex-snapshot

Hypometabolism during Daily Torpor in Mice is Dominated by Reduction in the Sensitivity of the Thermoregulatory System

inferredcites →https://doi.org/10.1073/pnas.0704699104openalex-snapshot

The circadian clock stops ticking during deep hibernation in the European hamster

inferredcites →https://doi.org/10.1074/mcp.m400042-mcp200openalex-snapshot

Quantitative Analysis of Liver Protein Expression During Hibernation in the Golden-mantled Ground Squirrel

inferredcites →https://doi.org/10.1074/mcp.m900260-mcp200openalex-snapshot

Shotgun Proteomics Analysis of Hibernating Arctic Ground Squirrels

inferredcites →https://doi.org/10.1086/501053openalex-snapshot

Mitochondrial Metabolism in Hibernation: Metabolic Suppression, Temperature Effects, and Substrate Preferences

inferredcites →https://doi.org/10.1086/physzool.52.2.30152564openalex-snapshot

Daily Torpor in the Laboratory Mouse, Mus musculus Var. Albino

inferredcites →https://doi.org/10.1089/omi.2011.0118openalex-snapshot

clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

inferredcites →https://doi.org/10.1093/bioinformatics/btp324openalex-snapshot

Fast and accurate short read alignment with Burrows–Wheeler transform

inferredcites →https://doi.org/10.1093/bioinformatics/btp616openalex-snapshot

edgeR : a Bioconductor package for differential expression analysis of digital gene expression data

inferredcites →https://doi.org/10.1093/bioinformatics/btp698openalex-snapshot

Fast and accurate long-read alignment with Burrows–Wheeler transform

inferredcites →https://doi.org/10.1093/bioinformatics/btt285openalex-snapshot

Pathview: an R/Bioconductor package for pathway-based data integration and visualization

inferredcites →https://doi.org/10.1093/nar/gkx1126openalex-snapshot

JASPAR 2018: update of the open-access database of transcription factor binding profiles and its web framework

inferredcites →https://doi.org/10.1093/sleep/26.3.267openalex-snapshot

Sleep in Female Mice: A Strain Comparison Across the Estrous Cycle

inferredcites →https://doi.org/10.1101/gr.112466.110openalex-snapshot

Genome-wide analysis of promoter architecture in Drosophila melanogaster

inferredcites →https://doi.org/10.1101/gr.115469.110openalex-snapshot

Unamplified cap analysis of gene expression on a single-molecule sequencer

inferredcites →https://doi.org/10.1111/ajt.12954openalex-snapshot

ATF3-Mediated NRF2/HO-1 Signaling Regulates TLR4 Innate Immune Responses in Mouse Liver Ischemia/Reperfusion Injury

inferredcites →https://doi.org/10.1111/brv.12137openalex-snapshot

Daily torpor and hibernation in birds and mammals

inferredcites →https://doi.org/10.1111/mec.12963openalex-snapshot

Comparative functional genomics of adaptation to muscular disuse in hibernating mammals

inferredcites →https://doi.org/10.1126/science.1245503openalex-snapshot

C57BL/6N Mutation in Cytoplasmic FMRP interacting protein 2 Regulates Cocaine Response

inferredcites →https://doi.org/10.1146/annurev.physiol.66.032102.115105openalex-snapshot

Metabolic Rate and Body Temperature Reduction During Hibernation and Daily Torpor

inferredcites →https://doi.org/10.1152/ajpcell.00315.2009openalex-snapshot

FOXO signaling is required for disuse muscle atrophy and is directly regulated by Hsp70

inferredcites →https://doi.org/10.1152/ajpregu.00109.2011openalex-snapshot

Central circuitries for body temperature regulation and fever

inferredcites →https://doi.org/10.1152/ajpregu.00298.2011openalex-snapshot

Skeletal muscle proteomics: carbohydrate metabolism oscillates with seasonal and torpor-arousal physiology of hibernation

inferredcites →https://doi.org/10.1152/ajpregu.00418.2007openalex-snapshot

Proteomic analysis of the winter-protected phenotype of hibernating ground squirrel intestine

inferredcites →https://doi.org/10.1152/ajpregu.1995.268.6.r1507openalex-snapshot

alpha 2-Macroglobulin gene expression during hibernation in ground squirrels is independent of acute phase response

inferredcites →https://doi.org/10.1152/ajpregu.1998.275.4.r1127openalex-snapshot

Genetic variation in EEG activity during sleep in inbred mice

inferredcites →https://doi.org/10.1152/physiolgenomics.00301.2004openalex-snapshot

Seasonally hibernating phenotype assessed through transcript screening

inferredcites →https://doi.org/10.1152/physiolgenomics.90398.2008openalex-snapshot

Elevated expression of protein biosynthesis genes in liver and muscle of hibernating black bears ( Ursus americanus )

inferredcites →https://doi.org/10.1177/0748730417702246openalex-snapshot

Clock Gene Expression in the Suprachiasmatic Nucleus of Hibernating Arctic Ground Squirrels

inferredcites →https://doi.org/10.1186/1471-2164-11-201openalex-snapshot

Genomic analysis of expressed sequence tags in American black bear Ursus americanus

inferredcites →https://doi.org/10.1186/1471-2164-14-567openalex-snapshot

Molecular signatures of mammalian hibernation: comparisons with alternative phenotypes

inferredcites →https://doi.org/10.1186/gb-2013-14-7-r82openalex-snapshot

A comparative phenotypic and genomic analysis of C57BL/6J and C57BL/6N mouse strains

inferredcites →https://doi.org/10.1186/s12862-015-0373-6openalex-snapshot

Adaptation of peroxisome proliferator-activated receptor alpha to hibernation in bats

inferredcites →https://doi.org/10.1186/s12983-016-0173-xopenalex-snapshot

The bear circadian clock doesn’t ‘sleep’ during winter dormancy

inferredcites →https://doi.org/10.1242/jeb.066225openalex-snapshot

Regulation of the mTOR signaling network in hibernating thirteen-lined ground squirrels

inferredcites →https://doi.org/10.1242/jeb.116046openalex-snapshot

Dynamic changes in global and gene specific DNA methylation during hibernation in adult thirteen-lined ground squirrels, Ictidomys tridecemlineatus

inferredcites →https://doi.org/10.1371/journal.pbio.2002887openalex-snapshot

Systematic analysis of transcription start sites in avian development

inferredcites →https://doi.org/10.1371/journal.pone.0027021openalex-snapshot

Deep Sequencing the Transcriptome Reveals Seasonal Adaptive Mechanisms in a Hibernating Mammal

inferredcites →https://doi.org/10.1371/journal.pone.0054583openalex-snapshot

Positive Outcomes Influence the Rate and Time to Publication, but Not the Impact Factor of Publications of Clinical Trial Results

inferredcites →https://doi.org/10.1371/journal.pone.0058427openalex-snapshot

Seasonal and Regional Differences in Gene Expression in the Brain of a Hibernating Mammal

inferredcites →https://doi.org/10.1371/journal.pone.0076120openalex-snapshot

High-Throughput Sequencing Reveals Differential Expression of miRNAs in Intestine from Sea Cucumber during Aestivation

inferredcites →https://doi.org/10.1371/journal.pone.0107746openalex-snapshot

Comparison of Brain Transcriptome of the Greater Horseshoe Bats (Rhinolophus ferrumequinum) in Active and Torpid Episodes

inferredcites →https://doi.org/10.1371/journal.pone.0114305openalex-snapshot

Devising Assisted Reproductive Technologies for Wild-Derived Strains of Mice: 37 Strains from Five Subspecies of Mus musculus

inferredcites →https://doi.org/10.1371/journal.pone.0123509openalex-snapshot

Opposing Activity Changes in AMP Deaminase and AMP-Activated Protein Kinase in the Hibernating Ground Squirrel

inferredcites →https://doi.org/10.1371/journal.pone.0131080openalex-snapshot

Biodiversity on the Rocks: Macrofauna Inhabiting Authigenic Carbonate at Costa Rica Methane Seeps

inferredcites →https://doi.org/10.1523/jneurosci.10-11-03685.1990openalex-snapshot

Circadian timekeeping in BALB/c and C57BL/6 inbred mouse strains

inferredcites →https://doi.org/10.1534/genetics.116.193334openalex-snapshot

Promoter Architecture and Sex-Specific Gene Expression in Daphnia pulex

inferredcites →https://doi.org/10.1538/expanim.14-0061openalex-snapshot

Development of SNP markers for C57BL/6N-derived mouse inbred strains

inferredcites →https://doi.org/10.1681/asn.2005111155openalex-snapshot

ATF3 Protects against Renal Ischemia-Reperfusion Injury

inferredcites →https://doi.org/10.2144/000114400openalex-snapshot

Targeted Reduction of Highly Abundant Transcripts Using Pseudo-Random Primers

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

R: A Language and Environment for Statistical Computing

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

inferred← citeshttps://doi.org/10.3389/fphys.2021.624950openalex-snapshot

Unraveling the Big Sleep: Molecular Aspects of Stem Cell Dormancy and Hibernation

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