Newest and Lowest Rated Papers
On Gilligan's "In a Different Voice"
Judy Auerbach, Linda Blum, Vicki Smith, Christine Williams
Feminist Studies·1985·28 citations
No abstract available
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View paper →THE PAST AND THE ICEBERG BLACK HORROR FILMS, THEN AND NOW
Clifford Thompson
Cinéaste·2021
No abstract available
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View paper →Mind and Spirit: Harnessing the Healing Power of Islamic-Based Interventions for Mental Health | Translation: The University of Toledo Journal of Medical Sciences
Aylia Zahra Naqvi, Agha Shahid, Rida Zahra Naqvi
openjournals.utoledo.edu
Translation: The University of Toledo Journal of Medical Sciences is the online journal launched by the University of Toledo. Manuscripts will be considered on the understanding that they report original work and are not under consideration for publication by any other journal. The journal publishes original articles reporting experimental results of basic or clinical research, case reports, and reviews. The journal uses a single blind peer review system and each manuscript, based on the results presented in its original submission, will be evaluated by two student reviewers and one faculty reviewer. This process will provide an opportunity for medical students, graduate students, residents, fellows and faculty to publish research observation in a timely manner.
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View paper →A proteome-wide yeast degron collection for the dynamic study of protein function
Rosario Valenti, Yotam David, Dunya Edilbi, Benjamin Dubreuil, Angela Boshnakovska, Yeynit Asraf, Tomer-Meir Salame, Ehud Sass, Peter Rehling, Maya Schuldiner
Journal of Cell Biology·2024·8 citations
<jats:p>Genome-wide collections of yeast strains, known as libraries, revolutionized the way systematic studies are carried out. Specifically, libraries that involve a cellular perturbation, such as the deletion collection, have facilitated key biological discoveries. However, short-term rewiring and long-term accumulation of suppressor mutations often obscure the functional consequences of such perturbations. We present the AID library which supplies “on demand” protein depletion to overcome these limitations. Here, each protein is tagged with a green fluorescent protein (GFP) and an auxin-inducible degron (AID), enabling rapid protein depletion that can be quantified systematically using the GFP element. We characterized the degradation response of all strains and demonstrated its utility by revisiting seminal yeast screens for genes involved in cell cycle progression as well as mitochondrial distribution and morphology. In addition to recapitulating known phenotypes, we also uncovered proteins with previously unrecognized roles in these central processes. Hence, our tool expands our knowledge of cellular biology and physiology by enabling access to phenotypes that are central to cellular physiology and therefore rapidly equilibrated.</jats:p>
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View paper →Core elements play distinct roles in promoter birth and transcriptional regulation
Kuo, S.-T., Shen, W.-Y., Lai, S.-W., Ni, C.-W., Chang, C.-C., Palmai, Z., Yang, L.-W., Chan, N.-L., Lee, I.-R., Chou, H.-H. D.
bioRxiv·2025
Gene expression shapes phenotypes and evolution. However, studies of gene regulation focus on transcription factors, overlooking core promoters. To investigate how promoters emerge and regulate transcription, we determined the sequence-function landscapes of core elements, -35 and -10, in constitutive and transcription factor-regulated promoters in Escherichia coli. Characterization of in vivo transcriptional landscapes and in vitro RNA polymerase-promoter interactions showed the -10 element as essential for promoter evolution from random sequences. In contrast, the -35 element, though broadly conserved, is dispensable for promoter birth. Instead, it exerts greater impact on gene regulation via coordinated interactions with transcription activators and RNA polymerase. We further showed that evolution fine-tunes the -35 and -10 sequences of transcription factor-regulated promoters to achieve near-maximal fold changes by lowering basal while elevating induced expression. A notable exception is PluxI, whose leaky expression provides a crucial baseline for initiating quorum sensing. These findings elucidate promoter design principles and underscore the interdependence and coevolution of core elements, RNA polymerase, and transcription factors.
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View paper →Spread and Persistence of Virulence and Antibiotic Resistance Genes: A Ride on the F Plasmid Conjugation Module
Günther Koraimann
EcoSal Plus·2018·82 citations
<jats:p>
The F plasmid or F-factor is a large, 100-kbp, circular conjugative plasmid of
<jats:italic>Escherichia coli</jats:italic>
and was originally described as a vector for horizontal gene transfer and gene recombination in the late 1940s. Since then, F and related F-like plasmids have served as role models for bacterial conjugation. At present, more than 200 different F-like plasmids with highly related DNA transfer genes, including those for the assembly of a type IV secretion apparatus, are completely sequenced. They belong to the phylogenetically related MOB
<jats:sub>F12</jats:sub>
A group. F-like plasmids are present in enterobacterial hosts isolated from clinical as well as environmental samples all over the world. As conjugative plasmids, F-like plasmids carry genetic modules enabling plasmid replication, stable maintenance, and DNA transfer. In this plasmid backbone of approximately 60 kbp, the DNA transfer genes occupy the largest and mostly conserved part. Subgroups of MOB
<jats:sub>F12</jats:sub>
A plasmids can be defined based on the similarity of TraJ, a protein required for DNA transfer gene expression. In addition, F-like plasmids harbor accessory cargo genes, frequently embedded within transposons and/or integrons, which harness their host bacteria with antibiotic resistance and virulence genes, causing increasingly severe problems for the treatment of infectious diseases. Here, I focus on key genetic elements and their encoded proteins present on the F-factor and other typical F-like plasmids belonging to the MOB
<jats:sub>F12</jats:sub>
A group of conjugative plasmids.
</jats:p>
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View paper →High-throughput capture of actively transcribed region-interacting sequences reveals an intricate promoter-centered regulatory network
Unknown Author
sciencedirect.com·2025
No abstract available
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View paper →Potentiating empathic growth: Generating imagery while reading fiction increases empathy and prosocial behavior.
Dan R. Johnson, Grace K. Cushman, Lauren A. Borden, Madison S. McCune
Psychology of Aesthetics, Creativity, and the Arts·2013·68 citations
No abstract available
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View paper →Inferring facts from fiction: Reading correct and incorrect information affects memory for related information
Andrew C. Butler, Nancy A. Dennis, Elizabeth J. Marsh
Memory·2012·16 citations
No abstract available
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View paper →Mapping transcriptional responses to cellular perturbation dictionaries with RNA fingerprinting
Grabski, I. N., Lee, J., Blair, J., Dalgarno, C., Mascio, I., Bradu, A., Knowles, D. A., Satija, R.
bioRxiv·2025
Single-cell perturbation dictionaries provide systematic measurements of how cells respond to genetic and chemical perturbations, and create the opportunity to assign causal interpretations to observational data. Here, we introduce RNA fingerprinting, a statistical framework that maps transcriptional responses from new experiments onto reference perturbation dictionaries. RNA fingerprinting learns denoised perturbation "fingerprints" from single-cell data, then probabilisti-cally assigns query cells to one or more candidate perturbations while accounting for uncertainty. We benchmark our method across ground-truth datasets, demonstrating accurate assignments at single-cell resolution, scalability to genome-wide screens, and the ability to resolve combinatorial perturbations. We demonstrate its broad utility across diverse biological settings: identifying context-specific regulators of p53 under ribosomal stress, characterizing drug mechanisms of action and dose-dependent off-target effects, and uncovering cytokine-driven B cell heterogeneity during secondary influenza infection in vivo. Together, these results establish RNA fingerprinting as a versatile framework for interpreting single-cell datasets by linking cellular states to the underlying perturbations which generated them.
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View paper →The Impact of Non-Pathogenic Bacteria on the Spread of Virulence and Resistance Genes
Francisco Dionisio, Célia P. F. Domingues, João S. Rebelo, Francisca Monteiro, Teresa Nogueira
International Journal of Molecular Sciences·2023·25 citations
<jats:p>This review discusses the fate of antimicrobial resistance and virulence genes frequently present among microbiomes. A central concept in epidemiology is the mean number of hosts colonized by one infected host in a population of susceptible hosts: R0. It characterizes the disease’s epidemic potential because the pathogen continues its propagation through susceptible hosts if it is above one. R0 is proportional to the average duration of infections, but non-pathogenic microorganisms do not cause host death, and hosts do not need to be rid of them. Therefore, commensal bacteria may colonize hosts for prolonged periods, including those harboring drug resistance or even a few virulence genes. Thus, their R0 is likely to be (much) greater than one, with peculiar consequences for the spread of virulence and resistance genes. For example, computer models that simulate the spread of these genes have shown that their diversities should correlate positively throughout microbiomes. Bioinformatics analysis with real data corroborates this expectation. Those simulations also anticipate that, contrary to the common wisdom, human’s microbiomes with a higher diversity of both gene types are the ones that took antibiotics longer ago rather than recently. Here, we discuss the mechanisms and robustness behind these predictions and other public health consequences.</jats:p>
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