Ronald T. Raines
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View article: Nuclear Localization Signals Enable the Cellular Delivery of an Anti-CRISPR Protein to Control Genome Editing
Nuclear Localization Signals Enable the Cellular Delivery of an Anti-CRISPR Protein to Control Genome Editing Open
Precise regulation of Cas9 activity is essential to minimize off-target effects, mosaicism, chromosomal alterations, immunogenicity, and genotoxicity in genome editing. Although type II anti-CRISPR proteins (Acrs) can inhibit and regulate …
View article: Protective antigen–mediated delivery of an anti-CRISPR protein for precision genome editing
Protective antigen–mediated delivery of an anti-CRISPR protein for precision genome editing Open
Precise control over the dosage of Cas9-based technologies is essential because off-target effects, mosaicism, chromosomal aberrations, immunogenicity, and genotoxicity can arise with prolonged Cas9 activity. Type II anti-CRISPR proteins (…
View article: Cytosolic Delivery of Functional Ubiquitin
Cytosolic Delivery of Functional Ubiquitin Open
The proteostasis network involves complex protein signaling cascades. The tagging of proteins with ubiquitin is central to the degradation of cellular proteins, but understanding its exact role in processing proteins is complicated by the …
View article: Supplementary Table 1 from Identifying and Targeting Key Driver Genes for Collagen Production within the 11q13/14 Breast Cancer Amplicon
Supplementary Table 1 from Identifying and Targeting Key Driver Genes for Collagen Production within the 11q13/14 Breast Cancer Amplicon Open
Table S1. sgRNA sequences and drop-out screen results.
View article: Data from Identifying and Targeting Key Driver Genes for Collagen Production within the 11q13/14 Breast Cancer Amplicon
Data from Identifying and Targeting Key Driver Genes for Collagen Production within the 11q13/14 Breast Cancer Amplicon Open
Breast cancers of the Integrative Cluster 2 (IntClust-2) type, characterized by amplification of a small portion of chromosome 11, have a median survival of only 5 years. Several cancer-relevant genes occupy this portion of chromosome 11, …
View article: Supplementary Table 2 from Identifying and Targeting Key Driver Genes for Collagen Production within the 11q13/14 Breast Cancer Amplicon
Supplementary Table 2 from Identifying and Targeting Key Driver Genes for Collagen Production within the 11q13/14 Breast Cancer Amplicon Open
Table S2. IC50 Values of P4HA3 and SERPINH1 against IntClust-2 and non-IntClust-2 cell lines.
View article: Supplementary Figure 1 from Identifying and Targeting Key Driver Genes for Collagen Production within the 11q13/14 Breast Cancer Amplicon
Supplementary Figure 1 from Identifying and Targeting Key Driver Genes for Collagen Production within the 11q13/14 Breast Cancer Amplicon Open
Figure S1. siRNA-mediated wound healing assay
View article: Supplementary Figure 2 from Identifying and Targeting Key Driver Genes for Collagen Production within the 11q13/14 Breast Cancer Amplicon
Supplementary Figure 2 from Identifying and Targeting Key Driver Genes for Collagen Production within the 11q13/14 Breast Cancer Amplicon Open
Figure S2. Chemical structures of the three key compounds.
View article: Supplementary Figure 3 from Identifying and Targeting Key Driver Genes for Collagen Production within the 11q13/14 Breast Cancer Amplicon
Supplementary Figure 3 from Identifying and Targeting Key Driver Genes for Collagen Production within the 11q13/14 Breast Cancer Amplicon Open
Figure S3. Drug-mediated wound healing assay.
View article: Protective antigen-mediated delivery of an anti-CRISPR protein for precision genome editing
Protective antigen-mediated delivery of an anti-CRISPR protein for precision genome editing Open
Precise control over the dosage of Cas9-based technologies is essential because off-target effects, mosaicism, chromosomal aberrations, immunogenicity, and genotoxicity can arise with prolonged Cas9 activity. Type II anti-CRISPR proteins (…
View article: Identifying and Targeting Key Driver Genes for Collagen Production within the 11q13/14 Breast Cancer Amplicon
Identifying and Targeting Key Driver Genes for Collagen Production within the 11q13/14 Breast Cancer Amplicon Open
Breast cancers of the Integrative Cluster 2 (IntClust-2) type, characterized by amplification of a small portion of chromosome 11, have a median survival of only 5 years. Several cancer-relevant genes occupy this portion of chromosome 11, …
View article: An outcome-defining role for the triple-helical domain in regulating collagen-I assembly
An outcome-defining role for the triple-helical domain in regulating collagen-I assembly Open
Collagens are the foundational component of diverse tissues, including skin, bone, cartilage, and basement membranes, and are the most abundant protein class in animals. The fibrillar collagens are large, complex, multidomain proteins, all…
View article: Sitetack: a deep learning model that improves PTM prediction by using known PTMs
Sitetack: a deep learning model that improves PTM prediction by using known PTMs Open
Motivation Post-translational modifications (PTMs) increase the diversity of the proteome and are vital to organismal life and therapeutic strategies. Deep learning has been used to predict PTM locations. Still, limitations in datasets and…
View article: Mammalian Esterase Activity: Implications for Peptide Prodrugs
Mammalian Esterase Activity: Implications for Peptide Prodrugs Open
As a traceless, bioreversible modification, the esterification of carboxyl groups in peptides and proteins has the potential to increase their clinical utility. An impediment is the lack of strategies to quantify esterase-catalyzed hydroly…
View article: Pauli Exclusion by n→π* Interactions: Implications for Paleobiology
Pauli Exclusion by n→π* Interactions: Implications for Paleobiology Open
Proteins have evolved to function in an aqueous environment. Collagen, which provides the bodily scaffold for animals, has a special need to retain its integrity. This need was addressed early on, as intact collagen has been detected in di…
View article: Peptidic “Molecular Beacon” for Collagen
Peptidic “Molecular Beacon” for Collagen Open
Collagen-mimetic peptides (CMP) have been invaluable tools for understanding the structure and function of collagen, which is the most abundant protein in animals. CMPs have also been developed as probes that detect damaged collagen becaus…
View article: Chemoselective Reagents for the Traceless Bioreversible Modification of Native Proteins
Chemoselective Reagents for the Traceless Bioreversible Modification of Native Proteins Open
Nature utilizes bioreversible post-translational modifications (PTMs) to spatiotemporally diversify protein function. Mimicking Nature's approach, chemists have developed a variety of chemoselective regents for traceless, bioreversible mod…
View article: Pentaphosphorylation via the Anhydride of Dihydrogen Pentametaphosphate: Access to Nucleoside Hexa- and Heptaphosphates and Study of Their Interaction with Ribonuclease A
Pentaphosphorylation via the Anhydride of Dihydrogen Pentametaphosphate: Access to Nucleoside Hexa- and Heptaphosphates and Study of Their Interaction with Ribonuclease A Open
Pentametaphosphate is the little studied cyclic pentamer of the metaphosphate ion, [PO3]5 5-. We show that the doubly protonated form of this pentamer can be selectively dehydrated to provide the anhydride [P5O14]3- (1). This trianion is t…
View article: Endosomolytic Peptides Enable the Cellular Delivery of Peptide Nucleic Acids
Endosomolytic Peptides Enable the Cellular Delivery of Peptide Nucleic Acids Open
Precision genetic medicine enlists antisense oligonucleotides (ASOs) to bind to nucleic acid targets important for human disease. Peptide nucleic acids (PNAs) have many desirable attributes as ASOs but lack cellular permeability. Here, we …
View article: Facile Access to Branched Multispecific Proteins
Facile Access to Branched Multispecific Proteins Open
Approaches that leverage orthogonal chemical reactions to generate protein-protein conjugates have expanded access to bespoke chimeras. Although the literature is replete with examples of the semisynthesis of bispecific proteins, few metho…
View article: Taming the 1,5‐sigmatropic shift across protonated spirocyclic 4<i>H</i>‐pyrazoles
Taming the 1,5‐sigmatropic shift across protonated spirocyclic 4<i>H</i>‐pyrazoles Open
The condensation of 1,3‐diketones with hydrazine to access 4 H ‐pyrazoles is a well‐established synthetic route that travels through a 4 H ‐pyrazol‐1‐ium intermediate. In the route to a 3,5‐diphenyl‐4 H ‐pyrazole containing a cyclobutane s…
View article: Sitetack: A Deep Learning Model that Improves PTM Prediction by Using Known PTMs
Sitetack: A Deep Learning Model that Improves PTM Prediction by Using Known PTMs Open
Post-translational modifications (PTMs) increase the diversity of the proteome and are vital to organismal life and therapeutic strategies. Deep learning has been used to predict PTM locations. Still, limitations in datasets and their anal…
View article: Identifying and targeting key driver genes for collagen production within the 11q13/14 breast cancer amplicon
Identifying and targeting key driver genes for collagen production within the 11q13/14 breast cancer amplicon Open
Genetic studies indicate that breast cancer can be divided into several basic molecular groups. One of these groups, termed IntClust-2, is characterized by amplification of a small portion of chromosome 11 and has a median survival of only…
View article: Evaluation of the Cytosolic Uptake of HaloTag Using a pH-Sensitive Dye
Evaluation of the Cytosolic Uptake of HaloTag Using a pH-Sensitive Dye Open
The efficient cytosolic delivery of proteins is critical for advancing novel therapeutic strategies. Current delivery methods are severely limited by endosomal entrapment, and detection methods lack sophistication in tracking the fate of d…
View article: Sensitive detection of SARS‐CoV‐2 main protease 3CL<sup>pro</sup> with an engineered ribonuclease zymogen
Sensitive detection of SARS‐CoV‐2 main protease 3CL<sup>pro</sup> with an engineered ribonuclease zymogen Open
Alongside vaccines and antiviral therapeutics, diagnostic tools are a crucial aid in combating the COVID‐19 pandemic caused by the etiological agent SARS‐CoV‐2. All common assays for infection rely on the detection of viral sub‐components,…
View article: Click Organocatalysis: Acceleration of Azide–Alkyne Cycloadditions with Mutually Orthogonal Click Reactions
Click Organocatalysis: Acceleration of Azide–Alkyne Cycloadditions with Mutually Orthogonal Click Reactions Open
"Click organocatalysis" uses mutually orthogonal click reactions to organocatalyze a click reaction. We report the development of an isobenzofuran organocatalyst that increases the rate and regioselectivity of an azide-alkyne cycloaddition…
View article: Endosomolytic peptides enable the cellular delivery of peptide nucleic acids
Endosomolytic peptides enable the cellular delivery of peptide nucleic acids Open
Precision genetic medicine enlists antisense oligonucleotides (ASOs) to bind to nucleic acid targets important for human disease.
View article: Synthetic Collagen Hydrogels through Symmetric Self‐Assembly of Small Peptides
Synthetic Collagen Hydrogels through Symmetric Self‐Assembly of Small Peptides Open
Animal‐sourced hydrogels, such as collagen, are widely used as extracellular‐matrix (ECM) mimics in tissue engineering but are plagued with problems of reproducibility, immunogenicity, and contamination. Synthetic, chemically defined hydro…
View article: Detection of Pulmonary Fibrosis with a Collagen-Mimetic Peptide
Detection of Pulmonary Fibrosis with a Collagen-Mimetic Peptide Open
Idiopathic pulmonary fibrosis (IPF) is a disease of unknown etiology that is characterized by excessive deposition and abnormal remodeling of collagen. IPF has a mean survival time of only 2-5 years from diagnosis, creating a need to detec…