Experimental measurement of an effective temperature for jammed granular materials.

Abstract:

:A densely packed granular system is an example of an out-of-equilibrium system in the jammed state. It has been a longstanding problem to determine whether this class of systems can be described by concepts arising from equilibrium statistical mechanics, such as an effective temperature and compactivity. The measurement of the effective temperature is realized in the laboratory by slowly shearing a closely packed ensemble of spherical beads confined by an external pressure in a Couette geometry. All of the probe particles considered in this study, independent of their characteristic features, equilibrate at the same temperature, given by the packing density of the system.

authors

Song C,Wang P,Makse HA

doi

10.1073/pnas.0409911102

keywords:

subject

Has Abstract

pub_date

2005-02-15 00:00:00

pages

2299-304

issue

7

eissn

0027-8424

issn

1091-6490

pii

0409911102

journal_volume

102

pub_type

杂志文章
  • Amyloid fibril protein related to prealbumin in familial amyloidotic polyneuropathy.

    abstract::Amyloid fibrils were concentrated from the kidney, thyroid, and peripheral nerve of six patients with familial amyloidotic polyneuropathy (FAP). The fibril concentrates were solubilized in 6 M guanidine.HCl and fractionated on Sephadex G-100 columns. The elution profile of all FAP amyloid fibril concentrates revealed ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.75.9.4499

    authors: Costa PP,Figueira AS,Bravo FR

    更新日期:1978-09-01 00:00:00

  • Paternal diet programs offspring health through sperm- and seminal plasma-specific pathways in mice.

    abstract::The association between poor paternal diet, perturbed embryonic development, and adult offspring ill health represents a new focus for the Developmental Origins of Health and Disease hypothesis. However, our understanding of the underlying mechanisms remains ill-defined. We have developed a mouse paternal low-protein ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1806333115

    authors: Watkins AJ,Dias I,Tsuro H,Allen D,Emes RD,Moreton J,Wilson R,Ingram RJM,Sinclair KD

    更新日期:2018-10-02 00:00:00

  • Enzymatic repair of DNA, 1. Purification of two enzymes involved in the excision of thymine dimers from ultraviolet-irradiated DNA.

    abstract::Two nucleases that catalyze the excision of photoproducts from UV-irradiated DNA have been extensively purified from M. luteus (M. lysodeikticus). The first enzyme, an endonuclease, has been purified 5000-fold and is free of conflicting nuclease activities. It introduces single-strand breaks into irradiated DNA but do...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.63.1.144

    authors: Kaplan JC,Kushner SR,Grossman L

    更新日期:1969-05-01 00:00:00

  • Mitotic and neurogenic effects of dehydroepiandrosterone (DHEA) on human neural stem cell cultures derived from the fetal cortex.

    abstract::Dehydroepiandrosterone (DHEA) is a neurosteroid with potential effects on neurogenesis and neuronal survival in humans. However, most studies on DHEA have been performed in rodents, and there is little direct evidence for biological effects on the human nervous system. Furthermore, the mechanism of its action is unkno...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0307325101

    authors: Suzuki M,Wright LS,Marwah P,Lardy HA,Svendsen CN

    更新日期:2004-03-02 00:00:00

  • Parkinson's disease-related phosphorylation at Tyr39 rearranges α-synuclein amyloid fibril structure revealed by cryo-EM.

    abstract::Posttranslational modifications (PTMs) of α-synuclein (α-syn), e.g., phosphorylation, play an important role in modulating α-syn pathology in Parkinson's disease (PD) and α-synucleinopathies. Accumulation of phosphorylated α-syn fibrils in Lewy bodies and Lewy neurites is the histological hallmark of these diseases. H...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1922741117

    authors: Zhao K,Lim YJ,Liu Z,Long H,Sun Y,Hu JJ,Zhao C,Tao Y,Zhang X,Li D,Li YM,Liu C

    更新日期:2020-08-18 00:00:00

  • Exploring the proton pump and exit pathway for pumped protons in cytochrome ba3 from Thermus thermophilus.

    abstract::The heme-copper oxygen reductases are redox-driven proton pumps. In the current work, the effects of mutations in a proposed exit pathway for pumped protons are examined in the ba(3)-type oxygen reductase from Thermus thermophilus, leading from the propionates of heme a(3) to the interface between subunits I and II. R...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1107345109

    authors: Chang HY,Choi SK,Vakkasoglu AS,Chen Y,Hemp J,Fee JA,Gennis RB

    更新日期:2012-04-03 00:00:00

  • Higher order nuclear organization: three-dimensional distribution of small nuclear ribonucleoprotein particles.

    abstract::The structural and functional organization of the cell nucleus has been investigated using three-dimensional reconstruction, immunoelectron microscopy, and high-resolution in situ autoradiography. Nuclear regions enriched in small nuclear ribonucleoprotein particles (snRNPs) form a reticular network within the nucleop...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.87.1.147

    authors: Spector DL

    更新日期:1990-01-01 00:00:00

  • Metabolomics analysis reveals large effects of gut microflora on mammalian blood metabolites.

    abstract::Although it has long been recognized that the enteric community of bacteria that inhabit the human distal intestinal track broadly impacts human health, the biochemical details that underlie these effects remain largely undefined. Here, we report a broad MS-based metabolomics study that demonstrates a surprisingly lar...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0812874106

    authors: Wikoff WR,Anfora AT,Liu J,Schultz PG,Lesley SA,Peters EC,Siuzdak G

    更新日期:2009-03-10 00:00:00

  • Region effects influence local tree species diversity.

    abstract::Global patterns of biodiversity reflect both regional and local processes, but the relative importance of local ecological limits to species coexistence, as influenced by the physical environment, in contrast to regional processes including species production, dispersal, and extinction, is poorly understood. Failure t...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1523683113

    authors: Ricklefs RE,He F

    更新日期:2016-01-19 00:00:00

  • Predator-induced macroevolutionary trends in Mesozoic crinoids.

    abstract::Sea urchins are a major component of recent marine communities where they exert a key role as grazers and benthic predators. However, their impact on past marine organisms, such as crinoids, is hard to infer in the fossil record. Analysis of bite mark frequencies on crinoid columnals and comprehensive genus-level dive...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 历史文章,杂志文章

    doi:10.1073/pnas.1201573109

    authors: Gorzelak P,Salamon MA,Baumiller TK

    更新日期:2012-05-01 00:00:00

  • Coherent delta-band oscillations between cortical areas correlate with decision making.

    abstract::Coherent oscillations in the theta-to-gamma frequency range have been proposed as a mechanism that coordinates neural activity in large-scale cortical networks in sensory, motor, and cognitive tasks. Whether this mechanism also involves coherent oscillations at delta frequencies (1-4 Hz) is not known. Rather, delta os...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1314681110

    authors: Nácher V,Ledberg A,Deco G,Romo R

    更新日期:2013-09-10 00:00:00

  • Failure of glucose to elicit a normal secretory response in fetal pancreatic beta cells results from glucose insensitivity of the ATP-regulated K+ channels.

    abstract::Fetal pancreatic beta cells demonstrate a deficient insulin release in response to glucose, but the underlying mechanism at the cellular level is unknown. By using beta cells from 21-day fetal rats we made an attempt to clarify the mechanism(s) behind this reduced glucose response. In addition to measuring insulin rel...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.86.12.4505

    authors: Rorsman P,Arkhammar P,Bokvist K,Hellerström C,Nilsson T,Welsh M,Welsh N,Berggren PO

    更新日期:1989-06-01 00:00:00

  • Nonmuscle myosin II exerts tension but does not translocate actin in vertebrate cytokinesis.

    abstract::During vertebrate cytokinesis it is thought that contractile ring constriction is driven by nonmuscle myosin II (NM II) translocation of antiparallel actin filaments. Here we report in situ, in vitro, and in vivo observations that challenge this hypothesis. Graded knockdown of NM II in cultured COS-7 cells reveals tha...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1116268109

    authors: Ma X,Kovács M,Conti MA,Wang A,Zhang Y,Sellers JR,Adelstein RS

    更新日期:2012-03-20 00:00:00

  • Neural BC1 RNA as an evolutionary marker: guinea pig remains a rodent.

    abstract::The traditional morphologically grounded placement of South American guinea pig-like rodents (Caviomorpha) within one of the two rodent suborders, Hystricognathi, has been disputed by recent analysis of protein and nucleic acid sequence data. The Caviomorpha and possibly all Hystricognathi would be considered a separa...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.90.20.9698

    authors: Martignetti JA,Brosius J

    更新日期:1993-10-15 00:00:00

  • Spontaneous neuronal activity distinguishes human dorsal and ventral attention systems.

    abstract::On the basis of task-related imaging studies in normal human subjects, it has been suggested that two attention systems exist in the human brain: a bilateral dorsal attention system involved in top-down orienting of attention and a right-lateralized ventral attention system involved in reorienting attention in respons...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0604187103

    authors: Fox MD,Corbetta M,Snyder AZ,Vincent JL,Raichle ME

    更新日期:2006-06-27 00:00:00

  • An evolutionary constraint: strongly disfavored class of change in DNA sequence during divergence of cis-regulatory modules.

    abstract::The DNA of functional cis-regulatory modules displays extensive sequence conservation in comparisons of genomes from modestly distant species. Patches of sequence that are several hundred base pairs in length within these modules are often seen to be 80-95% identical, although the flanking sequence cannot even be alig...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0505291102

    authors: Cameron RA,Chow SH,Berney K,Chiu TY,Yuan QA,Krämer A,Helguero A,Ransick A,Yun M,Davidson EH

    更新日期:2005-08-16 00:00:00

  • Binding of histones H1 and H5 and their globular domains to four-way junction DNA.

    abstract::We have compared chicken erythrocyte linker histones H1 and H5 binding to a synthetic four-way DNA junction. Each histone binds to form a single complex, with an affinity which permits competition against a large excess of linear duplex DNA. The affinity of H5 is higher than that of H1. The globular domain from either...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.91.9.3525

    authors: Varga-Weisz P,Zlatanova J,Leuba SH,Schroth GP,van Holde K

    更新日期:1994-04-26 00:00:00

  • Coupling between d-3-phosphoglycerate dehydrogenase and d-2-hydroxyglutarate dehydrogenase drives bacterial l-serine synthesis.

    abstract::l-Serine biosynthesis, a crucial metabolic process in most domains of life, is initiated by d-3-phosphoglycerate (d-3-PG) dehydrogenation, a thermodynamically unfavorable reaction catalyzed by d-3-PG dehydrogenase (SerA). d-2-Hydroxyglutarate (d-2-HG) is traditionally viewed as an abnormal metabolite associated with c...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1619034114

    authors: Zhang W,Zhang M,Gao C,Zhang Y,Ge Y,Guo S,Guo X,Zhou Z,Liu Q,Zhang Y,Ma C,Tao F,Xu P

    更新日期:2017-09-05 00:00:00

  • Sulfonamide resistance mechanism in Escherichia coli: R plasmids can determine sulfonamide-resistant dihydropteroate synthases.

    abstract::Several natural isolate E. coli strains highly resistant to sulfonamides and antibiotics are shown to contain a sulfonamide-resistant dihydropteroate synthase (2-amino-4-hydroxy-6-hydroxymethyl-7,8-dihydropteridine-diphosphate:4-aminobenzoate 2-amino-4-hydroxydihydropteridine-6-methenyltransferase, EC 2.5.1.15) in add...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.72.7.2621

    authors: Wise EM Jr,Abou-Donia MM

    更新日期:1975-07-01 00:00:00

  • Transcriptional collision between convergent genes in budding yeast.

    abstract::Transcriptional interference between genes and the regulatory elements of simple eukaryotes such as Saccharomyces cerevisiae is an unavoidable consequence of their compressed genetic arrangement. We have shown previously that with the tandem arranged genes GAL10 and GAL7, inefficient transcriptional termination of the...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.132270899

    authors: Prescott EM,Proudfoot NJ

    更新日期:2002-06-25 00:00:00

  • Energy depletion retards the loss of membrane transport during reticulocyte maturation.

    abstract::The effect of metabolic depletion on the maturation-associated loss of membrane functions has been studied by using sheep reticulocytes incubated in vitro at 37 degrees C for periods up to 41 hr. ATP was either maintained with glucose, adenosine plus inosine, or depleted with 2-deoxyglucose plus arsenate. Two membrane...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.80.16.4978

    authors: Weigensberg AM,Blostein R

    更新日期:1983-08-01 00:00:00

  • Harnessing adolescent values to motivate healthier eating.

    abstract::What can be done to reduce unhealthy eating among adolescents? It was hypothesized that aligning healthy eating with important and widely shared adolescent values would produce the needed motivation. A double-blind, randomized, placebo-controlled experiment with eighth graders (total n = 536) evaluated the impact of a...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1604586113

    authors: Bryan CJ,Yeager DS,Hinojosa CP,Chabot A,Bergen H,Kawamura M,Steubing F

    更新日期:2016-09-27 00:00:00

  • Selection of an RNA molecule that mimics a major autoantigenic epitope of human insulin receptor.

    abstract::Autoimmunity often involves the abnormal targeting of self-antigens by antibodies, leading to tissue destruction and other pathologies. This process could potentially be disrupted by small ligands that bind specifically to autoantibodies and inhibit their interaction with the target antigen. Here we report the identif...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.92.6.2355

    authors: Doudna JA,Cech TR,Sullenger BA

    更新日期:1995-03-14 00:00:00

  • Solution structure and dynamics of a de novo designed three-helix bundle protein.

    abstract::Although de novo protein design is an important endeavor with implications for understanding protein folding, until now, structures have been determined for only a few 25- to 30-residue designed miniproteins. Here, the NMR solution structure of a complex 73-residue three-helix bundle protein, alpha3D, is reported. The...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.96.10.5486

    authors: Walsh ST,Cheng H,Bryson JW,Roder H,DeGrado WF

    更新日期:1999-05-11 00:00:00

  • Identification of a second aryl phosphate-binding site in protein-tyrosine phosphatase 1B: a paradigm for inhibitor design.

    abstract::The structure of the catalytically inactive mutant (C215S) of the human protein-tyrosine phosphatase 1B (PTP1B) has been solved to high resolution in two complexes. In the first, crystals were grown in the presence of bis-(para-phosphophenyl) methane (BPPM), a synthetic high-affinity low-molecular weight nonpeptidic s...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.94.25.13420

    authors: Puius YA,Zhao Y,Sullivan M,Lawrence DS,Almo SC,Zhang ZY

    更新日期:1997-12-09 00:00:00

  • Role of cyclophilin A in the uptake of HIV-1 by macrophages and T lymphocytes.

    abstract::Cyclophilins are a family of proteins that bind cyclosporin A (CsA) and possess peptidyl-prolyl cis-trans isomerase activity. In addition, they are secreted by activated cells and act in a cytokine-like manner, presumably via signaling through a cell surface cyclophilin receptor. More recently, host-derived cyclophili...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.95.4.1758

    authors: Sherry B,Zybarth G,Alfano M,Dubrovsky L,Mitchell R,Rich D,Ulrich P,Bucala R,Cerami A,Bukrinsky M

    更新日期:1998-02-17 00:00:00

  • Stochastic gene expression as a many-body problem.

    abstract::Gene expression has a stochastic component because of the single-molecule nature of the gene and the small number of copies of individual DNA-binding proteins in the cell. We show how the statistics of such systems can be mapped onto quantum many-body problems. The dynamics of a single gene switch resembles the spin-b...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.2627987100

    authors: Sasai M,Wolynes PG

    更新日期:2003-03-04 00:00:00

  • Coherent phonon dynamics in spatially separated graphene mechanical resonators.

    abstract::Vibrational modes in mechanical resonators provide a promising candidate to interface and manipulate classical and quantum information. The observation of coherent dynamics between distant mechanical resonators can be a key step toward scalable phonon-based applications. Here we report tunable coherent phonon dynamics...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1916978117

    authors: Zhang ZZ,Song XX,Luo G,Su ZJ,Wang KL,Cao G,Li HO,Xiao M,Guo GC,Tian L,Deng GW,Guo GP

    更新日期:2020-03-17 00:00:00

  • Insula serotonin 2A receptor binding and gene expression contribute to serotonin transporter polymorphism anxious phenotype in primates.

    abstract::Genetic variation in the serotonin transporter gene (SLC6A4) is associated with vulnerability to affective disorders and pharmacotherapy efficacy. We recently identified sequence polymorphisms in the common marmoset SLC6A4 repeat region (AC/C/G and CT/T/C) associated with individual differences in anxiety-like trait, ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1902087116

    authors: Santangelo AM,Sawiak SJ,Fryer T,Hong Y,Shiba Y,Clarke HF,Riss PJ,Ferrari V,Tait R,Suckling J,Aigbirhio FI,Roberts AC

    更新日期:2019-07-16 00:00:00

  • Using microsecond single-molecule FRET to determine the assembly pathways of T4 ssDNA binding protein onto model DNA replication forks.

    abstract::DNA replication is a core biological process that occurs in prokaryotic cells at high speeds (∼1 nucleotide residue added per millisecond) and with high fidelity (fewer than one misincorporation event per 107 nucleotide additions). The ssDNA binding protein [gene product 32 (gp32)] of the T4 bacteriophage is a central...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1619819114

    authors: Phelps C,Israels B,Jose D,Marsh MC,von Hippel PH,Marcus AH

    更新日期:2017-05-02 00:00:00