Brian D. Slaughter
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View article: Molecular and cellular characterization of planarian stem cell microenvironments
Molecular and cellular characterization of planarian stem cell microenvironments Open
Stem cell niches are essential for regulating stem cell self-renewal and differentiation during tissue repair and regeneration. However, the mechanisms supporting stem cell function in highly regenerative organisms, such as the freshwater …
View article: An integrated structural model of the DNA damage-responsive H3K4me3 binding WDR76:SPIN1 complex with the nucleosome
An integrated structural model of the DNA damage-responsive H3K4me3 binding WDR76:SPIN1 complex with the nucleosome Open
Serial capture affinity purification (SCAP) is a powerful method to isolate a specific protein complex. When combined with cross-linking mass spectrometry and computational approaches, one can build an integrated structural model of the is…
View article: Multiple reorganizations of the lateral elements of the synaptonemal complex facilitate homolog segregation in Bombyx mori oocytes
Multiple reorganizations of the lateral elements of the synaptonemal complex facilitate homolog segregation in Bombyx mori oocytes Open
View article: Lola-I is a promoter pioneer factor that establishes de novo Pol II pausing during development
Lola-I is a promoter pioneer factor that establishes de novo Pol II pausing during development Open
While the accessibility of enhancers is dynamically regulated during development, promoters tend to be constitutively accessible and poised for activation by paused Pol II. By studying Lola-I, a Drosophila zinc finger transcription factor,…
View article: Shared retinoic acid responsive enhancers coordinately regulate nascent transcription of <i>Hoxb</i> coding and non-coding RNAs in the developing mouse neural tube
Shared retinoic acid responsive enhancers coordinately regulate nascent transcription of <i>Hoxb</i> coding and non-coding RNAs in the developing mouse neural tube Open
Signaling pathways regulate the patterns of Hox gene expression that underlie their functions in the specification of axial identity. Little is known about the properties of cis-regulatory elements and underlying transcriptional mechanisms…
View article: Serial Capture Affinity Purification and Integrated Structural Modeling of the H3K4me3 Binding and DNA Damage Related WDR76:SPIN1 Complex
Serial Capture Affinity Purification and Integrated Structural Modeling of the H3K4me3 Binding and DNA Damage Related WDR76:SPIN1 Complex Open
WDR76 is a multifunctional protein involved in many cellular functions. With a diverse and complicated protein interaction network, dissecting the structure and function of specific WDR76 complexes is needed. We previously demonstrated the…
View article: Multiple Reorganizations of the Lateral Elements of the Synaptonemal Complex Facilitate Homolog Segregation in Bombyx Mori Oocytes
Multiple Reorganizations of the Lateral Elements of the Synaptonemal Complex Facilitate Homolog Segregation in Bombyx Mori Oocytes Open
View article: Shared retinoic acid responsive enhancers coordinately regulate nascent transcription of <i>Hoxb</i> coding and non-coding RNAs in the developing mouse neural tube
Shared retinoic acid responsive enhancers coordinately regulate nascent transcription of <i>Hoxb</i> coding and non-coding RNAs in the developing mouse neural tube Open
Signaling pathways regulate the patterns of Hox gene expression that underlie their functions in specification of axial identity. Little is known about the properties of cis -regulatory elements and underlying transcriptional mechanisms th…
View article: Lola-I is a developmentally regulated promoter pioneer factor
Lola-I is a developmentally regulated promoter pioneer factor Open
While enhancers are often regulated at the level of accessibility by pioneer factors, promoters tend to be constitutively accessible and poised for activation by paused Pol II — thus are often not considered as sites of developmental regul…
View article: Planarians employ diverse and dynamic stem cell microenvironments to support whole-body regeneration
Planarians employ diverse and dynamic stem cell microenvironments to support whole-body regeneration Open
SUMMARY Stem cells enable regeneration by self-renewing and differentiating as instructed by a local microenvironment called a niche 1–3 . In most cases, the repair or replacement of tissues is fueled by tissue-specific or lineage-restrict…
View article: Repeated evolution of circadian clock dysregulation in cavefish populations
Repeated evolution of circadian clock dysregulation in cavefish populations Open
Circadian rhythms are nearly ubiquitous throughout nature, suggesting they are critical for survival in diverse environments. Organisms inhabiting largely arrhythmic environments, such as caves, offer a unique opportunity to study the evol…
View article: A role for the Cockayne Syndrome B (CSB)-Elongin ubiquitin ligase complex in signal-dependent RNA polymerase II transcription
A role for the Cockayne Syndrome B (CSB)-Elongin ubiquitin ligase complex in signal-dependent RNA polymerase II transcription Open
The Elongin complex was originally identified as an RNA polymerase II (RNAPII) elongation factor and subsequently as the substrate recognition component of a Cullin-RING E3 ubiquitin ligase. More recent evidence indicates that the Elongin …
View article: Driving integrative structural modeling with serial capture affinity purification
Driving integrative structural modeling with serial capture affinity purification Open
Significance Determining the three-dimensional structures of protein complexes is critically important to guide biological research. Structural models of complexes can be built using powerful integrative approaches that combine emerging te…
View article: Adaptation to low parasite abundance affects immune investment and immunopathological responses of cavefish
Adaptation to low parasite abundance affects immune investment and immunopathological responses of cavefish Open
View article: Repeated evolution of circadian clock dysregulation in cavefish populations
Repeated evolution of circadian clock dysregulation in cavefish populations Open
Circadian rhythms are nearly ubiquitous throughout nature, suggesting they are critical for survival in diverse environments. Organisms inhabiting environments with arrhythmic days, such as caves, offer a unique opportunity to study the ev…
View article: Amyloid-like Assembly Activates a Phosphatase in the Developing Drosophila Embryo
Amyloid-like Assembly Activates a Phosphatase in the Developing Drosophila Embryo Open
View article: Amyloid-like Assembly Activates a Phosphatase in the Developing Drosophila Embryo
Amyloid-like Assembly Activates a Phosphatase in the Developing Drosophila Embryo Open
View article: The stoichiometry of the outer kinetochore is modulated by microtubule-proximal regulatory factors
The stoichiometry of the outer kinetochore is modulated by microtubule-proximal regulatory factors Open
The kinetochore is a large molecular machine that attaches chromosomes to microtubules and facilitates chromosome segregation. The kinetochore includes submodules that associate with the centromeric DNA and submodules that attach to microt…
View article: Yeast centrosome components form a noncanonical LINC complex at the nuclear envelope insertion site
Yeast centrosome components form a noncanonical LINC complex at the nuclear envelope insertion site Open
Bipolar spindle formation in yeast requires insertion of centrosomes (known as spindle pole bodies [SPBs]) into fenestrated regions of the nuclear envelope (NE). Using structured illumination microscopy and bimolecular fluorescence complem…
View article: Decision letter: A multiplexed DNA FISH strategy for assessing genome architecture in Caenorhabditis elegans
Decision letter: A multiplexed DNA FISH strategy for assessing genome architecture in Caenorhabditis elegans Open
Article Figures and data Abstract eLife digest Introduction Results Discussion Materials and methods Data availability References Decision letter Author response Article and author information Metrics Abstract Eukaryotic DNA is highly orga…
View article: Membrane insertion function for SUN-KASH complex revealed by high resolution analysis of yeast centrosomes
Membrane insertion function for SUN-KASH complex revealed by high resolution analysis of yeast centrosomes Open
Bipolar spindle formation in yeast requires insertion of centrosomes (known as spindle pole bodies (SPBs)) into fenestrated regions of the nuclear envelope (NE). Using structured-illumination microscopy and bimolecular fluorescence complem…
View article: Integrative Structure and Functional Anatomy of a Nuclear Pore Complex
Integrative Structure and Functional Anatomy of a Nuclear Pore Complex Open
An abstract is not available for this content so a preview has been provided. As you have access to this content, a full PDF is available via the ‘Save PDF’ action button.
View article: The anatomy of a nucleus: As revealed by chromosome painting
The anatomy of a nucleus: As revealed by chromosome painting Open
Many factors play a role in determining which genes are active or inactive in cells at various stages of the cell cycle.The spatial organization of the genome is one such factor, encompassing things such as topologically associated domains…
View article: Integrative Structure And Functional Anatomy Of A Nuclear Pore Complex
Integrative Structure And Functional Anatomy Of A Nuclear Pore Complex Open
This repository contains the chemical cross-linking mass spectrometry raw data of the nuclear pore complex.
View article: Integrative Structure And Functional Anatomy Of A Nuclear Pore Complex
Integrative Structure And Functional Anatomy Of A Nuclear Pore Complex Open
This repository contains the chemical cross-linking mass spectrometry raw data of the nuclear pore complex.
View article: Integrative structure and functional anatomy of a nuclear pore complex
Integrative structure and functional anatomy of a nuclear pore complex Open
View article: Modeling Of The Yeast Nuclear Pore Complex
Modeling Of The Yeast Nuclear Pore Complex Open
These scripts demonstrate the use of IMP in the modeling of the yeast NPC complex using diverse types of data as described in Seung Joong Kim, et al.'s 2018 NPC article published in Nature. For more information about how t…
View article: Brownian Dynamics Simulations Of Yeast Nuclear Pore Complex Fg Repeats
Brownian Dynamics Simulations Of Yeast Nuclear Pore Complex Fg Repeats Open
The files in this folder can be used to reproduce the Brownian Dynamics simulations of FG repeats using IMP as described in Kim et al., 2018.
View article: Brownian Dynamics Simulations Of Yeast Nuclear Pore Complex Fg Repeats
Brownian Dynamics Simulations Of Yeast Nuclear Pore Complex Fg Repeats Open
The files in this folder can be used to reproduce the Brownian Dynamics simulations of FG repeats using IMP as described in Kim et al., 2018.
View article: Structural plasticity of the living kinetochore
Structural plasticity of the living kinetochore Open
The kinetochore is a large, evolutionarily conserved protein structure that connects chromosomes with microtubules. During chromosome segregation, outer kinetochore components track depolymerizing ends of microtubules to facilitate the sep…