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Patterns for Living. Oscar James Campbell , Justine van Gundy , Caroline Shrodes
1952
The Quarterly review of biology
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Edited by Oscar James Campbell, Justine Van Gundy, and Caroline Shrodes. The Macmillan Company, New York. Vol. I $3.75; Vol. II $3.75. Vol. I: xviii + 878 pp. Vol. II: xvi + pp. 673-1302. 1947. ...
Wells Split
250
the Atom (Freda Kirchwey); Apology for Man (Ernest A Hooton); Breaking the Vicious Circle (Karl Mennin- ger); and Sex ex Machina (James Thurber). ...
doi:10.1086/399021
fatcat:axyyuy2a2rhfhhk4uhxtez5jci
How Long Blues
2021
James Baldwin Review
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James Baldwin Review editors Douglas Field and Justin A. ...
Joyce interview author and Baldwin biographer James Campbell on the occasion of the reissue of his book Talking at the Gates (Polygon and University of California Press, 2021). ...
Justin A. Joyce is a founding co-editor of James Baldwin Review and Research Director for President McBride at The New School. ...
doi:10.7227/jbr.7.10
fatcat:mxr5cilfsrcndmrdbepy2moyku
Walk with the Wind
2021
James Baldwin Review
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Joyce introduces the seventh volume of James Baldwin Review. ...
that descended upon the US Capitol on 6 January 2021, reflecting on the baser instincts left unchecked in America by an absence of common communication and a paradigmatic shift in our media apparatuses, Justin ...
The second interview was conducted over email by JBR editors Douglas Field and Justin A. Joyce with James Campbell. ...
doi:10.7227/jbr.7.1
fatcat:utu5dii37ne6pco64ge4refavi
Lorem Ipsum Paris
2016
James Baldwin Review
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Notes
Works Cited Baldwin, James, "The Discovery of What it Means to Be American" (1959)
Contributors' Biographies Justin A. ...
INTRODUCTION
Lorem Ipsum Paris Justin A. Joyce and Dwight A. ...
doi:10.7227/jbr.2.1
fatcat:ufpo33u4bnhm5jfoin4k4movjm
Baltimore is Still Burning: the Rising Relevance of James Baldwin
2015
James Baldwin Review
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Quentin Miller's A Criminal Power: James Baldwin and the Law (2012), Matt Brim's James Baldwin and the Queer Imagination (2014), Douglas Field's All Those Strangers: The Art and Lives of James Baldwin ...
Quentin Miller's edited volume, Re-Viewing James Baldwin: Things Not Seen (2000), Herb Boyd's new biography, Baldwin's Harlem (2008), Magdalena Zaborowska's James Baldwin's Turkish Decade (2009), Randall ...
doi:10.7227/jbr.1.1
fatcat:5erghp3zp5etposdpbja2e2pxu
In medias res, A Moment of Silence
2017
James Baldwin Review
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INTRODUCTION
In medias res, A Moment of Silence Justin A. ...
James Baldwin, however, refuses such succor. ...
doi:10.7227/jbr.3.1
fatcat:fs53cdmqyfa2vinl4iu3eadlxa
Nietzsche and James on the Value of Constructing Objects
2018
Open Philosophy
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In this paper, I first suggest that Nietzsche and James, two otherwise very different thinkers, both endorse the controversial constructivist view that human representational practices bring all material ...
the lens of James. ...
Nietzsche and James on constructivism Let me begin by introducing the constructivist views in Nietzsche and James. ...
doi:10.1515/opphil-2018-0028
fatcat:z7jocqqqkbcqlcdf72qesd3oqa
New routes for PTP1B allosteric inhibition by multitemperature crystallography, fragment screening and covalent tethering
[article]
2017
bioRxiv
pre-print
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Allostery is an inherent feature of proteins and provides alternative routes to regulating function. Small-molecule allosteric inhibitors are often desirable; however, it remains challenging to identify surface sites in proteins which can bind small molecules and modulate function. We identified new allosteric sites in protein tyrosine phosphatase 1B (PTP1B) by combining multiple-temperature X-ray crystallography experiments and structure determination from hundreds of individual small-molecule
doi:10.1101/218966
fatcat:bll5xbamebhbtlxn7oq65xa4li
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... fragment soaks. New modeling approaches reveal "hidden" low-occupancy conformational states for protein and ligands. Our results converge on a new allosteric site that is conformationally coupled to the active-site WPD loop, a hotspot for fragment binding, not conserved in the closest homolog, and distinct from other recently reported allosteric sites in PTP1B. Targeting this site with covalently tethered molecules allosterically inhibits enzyme activity. Overall, this work demonstrates how the ensemble nature of macromolecular structure revealed by multitemperature crystallography can be exploited for developing allosteric modulators.
To Minimize the Bill That They Must Pay
2020
James Baldwin Review
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Joyce introduces the sixth volume of James Baldwin Review. ...
States to adequately address the COVID-19 pandemic, reflecting on the parade of mendacity that has encapsulated the 45th presidency, and interpreting Baldwin's call to be responsible to our children, Justin ...
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James Baldwin, "James Baldwin: Reflections of a Maverick" (1984), interview with Julius Lester, in James Baldwin: The Last ...
doi:10.7227/jbr.6.1
fatcat:we5cpyezibe6rcbnldvpztwda4
An expanded allosteric network in PTP1B by multitemperature crystallography, fragment screening, and covalent tethering
2018
eLife
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Allostery is an inherent feature of proteins, but it remains challenging to reveal the mechanisms by which allosteric signals propagate. A clearer understanding of this intrinsic circuitry would afford new opportunities to modulate protein function. Here, we have identified allosteric sites in protein tyrosine phosphatase 1B (PTP1B) by combining multiple-temperature X-ray crystallography experiments and structure determination from hundreds of individual small-molecule fragment soaks. New
doi:10.7554/elife.36307
pmid:29877794
pmcid:PMC6039181
fatcat:z6qukbbp5ne5nfvf2fiyzp4b4i
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... ng approaches reveal 'hidden' low-occupancy conformational states for protein and ligands. Our results converge on allosteric sites that are conformationally coupled to the active-site WPD loop and are hotspots for fragment binding. Targeting one of these sites with covalently tethered molecules or mutations allosterically inhibits enzyme activity. Overall, this work demonstrates how the ensemble nature of macromolecular structure, revealed here by multitemperature crystallography, can elucidate allosteric mechanisms and open new doors for long-range control of protein function.
Zebrafish Transcription Factor ORFeome for Gene Discovery and Regulatory Network Elucidation
2018
Zebrafish
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FIG. 1. (A, B) ChIP-seq is a TF-centric approach identifying DNA interaction sites for a single TF. Three promoters (genes 1-3) and 9 different TFs (TF1-9) are represented. Arrows represents TF-promoters interactions identified with the ChIPseq method. (B) eY1H is a gene-centric approach identifying interactors for a single DNA fragment. Same representation as A except arrows represent promoter-TFs interactions identified with the eY1H method. (C) Workflow for Y1H and TF ORFeome. DNA fragment
doi:10.1089/zeb.2017.1486
pmid:29173090
pmcid:PMC6112160
fatcat:aavkqspqdnbnbnokzv3oorllsa
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... cloned into reporter plasmid and subsequently integrated into yeast genome. Mating between the reporter strain and the ORF collection in compatible yeast is performed overnight. Diploid yeast is enriched using growth in selection media. At this point, the interaction can be revealed using direct reading substrate such as luciferin, or the reporter enzyme such as b-galactosidase can extract and quantify X-gal. ChIP, chromatin immunoprecipitation; ORF, open reading frame; TF, transcription factor; Y1H, yeast one hybrid.
Resource Sharing and Coevolution in Evolving Cellular Automata
[article]
1999
arXiv
pre-print
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Evolving one-dimensional cellular automata (CAs) with genetic algorithms has provided insight into how improved performance on a task requiring global coordination emerges when only local interactions are possible. Two approaches that can affect the search efficiency of the genetic algorithm are coevolution, in which a population of problems---in our case, initial configurations of the CA lattice---evolves along with the population of CAs; and resource sharing, in which a greater proportion of
arXiv:adap-org/9907007v1
fatcat:hn2mtgdapzcmtlfit7quoi6vg4
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... limited fitness resource is assigned to those CAs which correctly solve problems that fewer other CAs in the population can solve. Here we present evidence that, in contrast to what has been suggested elsewhere, the improvements observed when both techniques are used together depend largely on resource sharing alone.
Genomic analysis of bacteria in the Acute Oak Decline pathobiome
2019
Microbial Genomics
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The UK's native oak is under serious threat from Acute Oak Decline (AOD). Stem tissue necrosis is a primary symptom of AOD and several bacteria are associated with necrotic lesions. Two members of the lesion pathobiome, Brenneria goodwinii and Gibbsiella quercinecans, have been identified as causative agents of tissue necrosis. However, additional bacteria including Lonsdalea britannica and Rahnella species have been detected in the lesion microbiome, but their role in tissue degradation is
doi:10.1099/mgen.0.000240
pmid:30625111
pmcid:PMC6412055
fatcat:z5xqtmga2reydfsuovmb6xps2a
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... ear. Consequently, information on potential genome-encoded mechanisms for tissue necrosis is critical to understand the role and mechanisms used by bacterial members of the lesion pathobiome in the aetiology of AOD. Here, the whole genomes of bacteria isolated from AOD-affected trees were sequenced, annotated and compared against canonical bacterial phytopathogens and non-pathogenic symbionts. Using orthologous gene inference methods, shared virulence genes that retain the same function were identified. Furthermore, functional annotation of phytopathogenic virulence genes demonstrated that all studied members of the AOD lesion microbiota possessed genes associated with phytopathogens. However, the genome of B. goodwinii was the most characteristic of a necrogenic phytopathogen, corroborating previous pathological and metatranscriptomic studies that implicate it as the key causal agent of AOD lesions. Furthermore, we investigated the genome sequences of other AOD lesion microbiota to understand the potential ability of microbes to cause disease or contribute to pathogenic potential of organisms isolated from this complex pathobiome. The role of these members remains uncertain but some such as G. quercinecans may contribute to tissue necrosis through the release of necrotizing enzymes and may help more dangerous pathogens activate and realize their pathogenic potential or they may contribute as secondary/opportunistic pathogens with the potential to act as accessory species for B. goodwinii. We demonstrate that in combination with ecological data, whole genome sequencing provides key insights into the pathogenic potential of bacterial species whether they be phytopathogens, part-contributors or stimulators of the pathobiome.
Discovering and Manipulating Protein Conformational Heterogeneity and Function
2014
Biophysical Journal
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Rettenmaier 1 , James Wells 1 , James Fraser 1 . 1 UCSF, San Francisco, CA, USA, 2 Joint Center for Structural Genomics, Stanford Synchrotron Radiation Lightsource, Stanford, CA, USA. ...
94 (2008) 2737-2751; 5 Yonetani & Laberge, BBA 1784 (2008) 1146-1158. 3212-Plat Discovering and Manipulating Protein Conformational Heterogeneity and Function Daniel Keedy 1 , Henry van den Bedem 2 , Justin ...
doi:10.1016/j.bpj.2013.11.3515
fatcat:phwzotqzfrhgbc3xb7ycu4dwgu
Intensity of anxiety is modified via complex integrative stress circuitries
2016
Psychoneuroendocrinology
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Escalation of anxious behavior while environmentally and socially relevant contextual events amplify the intensity of emotional response produces a testable gradient of anxiety shaped by integrative circuitries. Apprehension of the Stress-Alternatives Model apparatus (SAM) oval open field (OF) is measured by the active latency to escape, and is delayed by unfamiliarity with the passageway. Familiar OF escape is the least anxious behavior along the continuum, which can be reduced by anxiolytics
doi:10.1016/j.psyneuen.2015.10.016
pmid:26555428
pmcid:PMC4838407
fatcat:am73x4wzojgmpeuh42u3dhgmeu
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... uch as icv neuropeptide S (NPS). Social aggression increases anxiousness in the SAM, reducing the number of mice willing to escape by 50%. The apprehension accompanying escape during social aggression is diminished by anxiolytics, such as exercise and corticotropin releasing-factor receptor 1 (CRF 1 ) antagonism, but exacerbated by anxiogenic treatment, like antagonism of ␣ 2 -adrenoreceptors. What is more, the anxiolytic CRF 1 and anxiogenic ␣ 2 -adrenoreceptor antagonists also modify behavioral phenotypes, with CRF 1 antagonism allowing escape by previously submissive animals, and ␣ 2 -adrenoreceptor antagonism hindering escape in mice that previously engaged in it. Gene expression of NPS and brain-derived neurotrophic factor (BDNF) in the central amygdala (CeA), as well as corticosterone secretion, increased concomitantly with the escalating anxious content of the mouse-specific anxiety continuum. The general trend of CeA NPS and BDNF expression suggested that NPS production was promoted by increasing anxiousness, and that BDNF synthesis was associated with learning about ever-more anxious conditions. The intensity gradient for anxious behavior resulting from varying contextual conditions may yield an improved conceptualization of the complexity of mechanisms producing the natural continuum of human anxious conditions, and potential therapies that arise therefrom. (C.H. Summers). hension to terror (Blanchard and Blanchard, 1989; Estes and Skinner, 1941; Freud, 1953) . Recent clinical trials suggest that the predictive power of most single anxiety level/niche tests is low (Haller and Alicki, 2012) . Many anxiolytic agents tested in clinical trials have been ineffective (Haller and Alicki, 2012), required a specific narrowing of the treatment group (Holsboer and Ising, 2010), or had adverse effects, sedation, and/or dependence liability (Mohler, 2012). We suggest that for greater translational salience, new models should contiguously examine multiple levels along a gradient of anxiety, and the contextual niches that make up the complex structure of real anxious behavior (Haller http://dx.
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