Open Access. Powered by Scholars. Published by Universities.®
Biochemistry, Biophysics, and Structural Biology Commons™
Open Access. Powered by Scholars. Published by Universities.®
- Discipline
-
- Biochemistry (7025)
- Molecular Biology (4552)
- Physical Sciences and Mathematics (2770)
- Medicine and Health Sciences (2681)
- Cell and Developmental Biology (2124)
-
- Chemistry (2108)
- Biology (1461)
- Cell Biology (1217)
- Genetics and Genomics (1063)
- Microbiology (1015)
- Medical Sciences (941)
- Biotechnology (905)
- Biophysics (871)
- Other Biochemistry, Biophysics, and Structural Biology (792)
- Immunology and Infectious Disease (757)
- Chemicals and Drugs (605)
- Structural Biology (586)
- Engineering (559)
- Physiology (495)
- Medical Specialties (490)
- Bioinformatics (460)
- Genetics (459)
- Diseases (417)
- Cancer Biology (394)
- Plant Sciences (388)
- Veterinary Medicine (381)
- Molecular Genetics (370)
- Pharmacology, Toxicology and Environmental Health (359)
- Institution
-
- University of Nebraska - Lincoln (1329)
- University of Kentucky (654)
- Old Dominion University (577)
- City University of New York (CUNY) (430)
- University of Arkansas, Fayetteville (424)
-
- University of South Florida (350)
- Brigham Young University (348)
- Wayne State University (319)
- Virginia Commonwealth University (278)
- Utah State University (251)
- The Texas Medical Center Library (220)
- Technological University Dublin (213)
- University of Central Florida (200)
- University at Albany, State University of New York (193)
- Loyola University Chicago (189)
- University of South Carolina (180)
- University of Texas at El Paso (178)
- University of Nevada, Las Vegas (170)
- Purdue University (162)
- University of the Pacific (158)
- Chapman University (156)
- Dartmouth College (150)
- University of Montana (148)
- Aga Khan University (135)
- University of Nebraska Medical Center (133)
- Rowan University (130)
- Himmelfarb Health Sciences Library, The George Washington University (126)
- University of Denver (126)
- Wright State University (116)
- California Polytechnic State University, San Luis Obispo (115)
- Keyword
-
- Humans (235)
- Biochemistry (228)
- Animals (214)
- Cancer (212)
- Apoptosis (134)
-
- Chemistry (131)
- RNA (129)
- Biological sciences (127)
- Metabolism (125)
- DNA (120)
- Mice (112)
- Bioinformatics (106)
- Mitochondria (105)
- Genetics (101)
- Protein (100)
- Biology (98)
- Pure sciences (92)
- Proteins (91)
- Biological Sciences (85)
- Proteomics (84)
- Inflammation (83)
- College of Natural Science and Mathematics (82)
- Oxidative stress (80)
- Breast cancer (78)
- Phosphorylation (76)
- Gene expression (74)
- Mass spectrometry (73)
- Transcription (73)
- Department of Biochemistry and Molecular Biology (71)
- Epigenetics (68)
- Publication Year
- Publication
-
- Theses and Dissertations (665)
- Department of Biochemistry: Faculty Publications (592)
- Electronic Theses and Dissertations (488)
- School of Veterinary and Biomedical Sciences: Faculty Publications (330)
- USF Tampa Graduate Theses and Dissertations (286)
-
- Graduate Theses and Dissertations (245)
- Faculty Publications (235)
- Dissertations, Theses, and Capstone Projects (220)
- Chemistry and Biochemistry Faculty Publications (213)
- Wayne State University Dissertations (213)
- Dissertations (207)
- Dissertations and Theses (Open Access) (207)
- Molecular and Cellular Biochemistry Faculty Publications (206)
- Honors Theses (191)
- Legacy Theses & Dissertations (2009 - 2024) (178)
- Chemistry Faculty Publications (176)
- Articles (141)
- Open Access Theses & Dissertations (131)
- Publications and Research (130)
- Department of Biological & Biomedical Sciences (121)
- Chemistry & Biochemistry Theses & Dissertations (119)
- Dartmouth Scholarship (114)
- Theses & Dissertations (112)
- Vadim Gladyshev Publications (110)
- Biology, Chemistry, and Environmental Sciences Faculty Articles and Research (106)
- Markey Cancer Center Faculty Publications (103)
- Biochemistry and Molecular Medicine Faculty Publications (102)
- All Graduate Theses and Dissertations, Spring 1920 to Summer 2023 (101)
- Loma Linda University Electronic Theses, Dissertations & Projects (99)
- Theses and Dissertations in Biomedical Sciences (93)
- Publication Type
- File Type
Articles 1981 - 2010 of 13229
Full-Text Articles in Biochemistry, Biophysics, and Structural Biology
Evaluation Of Free Radical Scavenging Activity Of Sauce And Formulation Of Tamarindus Indica (L.) And Prunus Domestica (L.) Fruits, Zulnoreen Sarfaraz, Mehmooda Munazir, Mubashrah Munir, Asma Ahmed, Rehana Badar, Ayesha Tahir
Evaluation Of Free Radical Scavenging Activity Of Sauce And Formulation Of Tamarindus Indica (L.) And Prunus Domestica (L.) Fruits, Zulnoreen Sarfaraz, Mehmooda Munazir, Mubashrah Munir, Asma Ahmed, Rehana Badar, Ayesha Tahir
Journal of Bioresource Management
The formulation and sauce of Tamarindus indica (L.) and Prusnus dometica (L.) are very popular recipes across globe. But, not even a single study existed on free-radical scavenging activity (FRSA) of afore-mentioned recipes. So, the present study was designed to bridge this gap of information. The FRSA of individual samples were also determined and compared with that of combinations of both. The highest value for FRSA among all samples was that of T. indica (158.9732 ± 12.658 % at 100 μg ml-1). It was followed by that of individual extract of P. domestica fruit (96.647 ± 0.554 %). …
Stabilizing G-Quadruplex Dna And Rna Structures With Ionic Liquids, Timothy Vaden
Stabilizing G-Quadruplex Dna And Rna Structures With Ionic Liquids, Timothy Vaden
College of Science & Mathematics Departmental Research
Stabilizing DNA and RNA for long-term room-temperature storage is important for many biotechnological applications including oncology pharmaceuticals and mRNA-based vaccines (e.g. Covid vaccines). This poster shows that ionic liquids can improve the thermal stability of G-quadruplex DNA and RNA structures, and motivates further studies of ionic liquid-based materials for DNA / RNA stabilization.
Damped Oscillating Phosphoryl Transfer Reaction In The Cyanobacterial Circadian Clock, Hye In Jang, Pyonghwa Kim, Yongick Kim
Damped Oscillating Phosphoryl Transfer Reaction In The Cyanobacterial Circadian Clock, Hye In Jang, Pyonghwa Kim, Yongick Kim
Chemistry Faculty Research
Most organisms have circadian clocks to ensure the metabolic cycle to resonate with the rhythmic environmental changes without “damping,” or losing robustness. Cyanobacteria is the oldest and simplest form of life that is known to harbor this biological intricacy. Its KaiABC-based central oscillator proteins can be reconstituted inside a test tube, and the post-translational modification cycle occurs with 24 h periodicity. KaiC’s two major phosphorylation sites, Ser-431 and Thr-432, become phosphorylated and dephosphorylated by interacting with KaiA and KaiB, respectively. Here, we mutate Thr-432 into Ser to find the oscillatory phosphoryl transfer reaction damps. Previously, this mutant KaiC was reported …
Synthesis, Characterization, And Cytotoxicity Studies Of A Copper(Ii) Complex With Vanillin 3-Ethyl-Thiosemcarbazone A Ligand, Novia Mann, Ifeoluwa Oyeyemi, Duaa R. Alajroush, Elizabeth A. Tonsel-White, Stephen J. Beebe, Alvin Holder
Synthesis, Characterization, And Cytotoxicity Studies Of A Copper(Ii) Complex With Vanillin 3-Ethyl-Thiosemcarbazone A Ligand, Novia Mann, Ifeoluwa Oyeyemi, Duaa R. Alajroush, Elizabeth A. Tonsel-White, Stephen J. Beebe, Alvin Holder
Undergraduate Research Symposium
Triple-negative breast cancer (TNBC) is one of the most aggressive and challenging breast cancer subtypes to treat, as these cancer cells lack three common receptors: estrogen, progesterone, and human epidermal growth factor receptor 2. The multiple oxidation states transition metals can occupy have made this narrowly explored group popular for anti-cancer research in recent decades. Furthermore, the success of cisplatin, which has platinum as a metal center, while being a cancer-fighting agent with serious side effects, has caused other metal centers to be investigated as possible alternatives as chemotherapeutic drugs. Copper, as a biologically essential metal, makes an attractive candidate …
Purification And Kinetic Characterization Of Mutant R111v Human Cytosolic Malate Dehydrogenase, Jackson Demartino
Purification And Kinetic Characterization Of Mutant R111v Human Cytosolic Malate Dehydrogenase, Jackson Demartino
Chemistry & Biochemistry Student Scholarship
Metabolic profiling for a variety of cancerous cells indicate significant increases in the levels of glucose consumption. To support uncontrolled cell division, cancer cells also present an uncoupling of glycolysis from the citric acid cycle to promote glucose carbons to the synthesis of biomass, therefore, requiring a constant supply of NAD+. Recent studies indicate that cancer cells exhibit upregulated cytosolic malate dehydrogenase (MDH1) activity, which catalyzes the conversion of oxaloacetate to malate with the oxidation of NADH, generating NAD+. Given its increased activity, MDH1 may serve as a valuable target for treating cancer. Here we report …
Potassium-Selective Channelrhodopsins, Elena G Govorunova, Oleg A Sineshchekov, John L Spudich
Potassium-Selective Channelrhodopsins, Elena G Govorunova, Oleg A Sineshchekov, John L Spudich
Faculty, Staff and Student Publications
Since their discovery 21 years ago, channelrhodopsins have come of age and have become indispensable tools for optogenetic control of excitable cells such as neurons and myocytes. Potential therapeutic utility of channelrhodopsins has been proven by partial vision restoration in a human patient. Previously known channelrhodopsins are either proton channels, non-selective cation channels almost equally permeable to Na+ and K+ besides protons, or anion channels. Two years ago, we discovered a group of channelrhodopsins that exhibit over an order of magnitude higher selectivity for K+ than for Na+. These proteins, known as “kalium channelrhodopsins” or KCRs, lack the canonical tetrameric …
Apkcs Role In Neuroblastoma Cell Signaling Cascades And Implications Of Apkcs Inhibitors As Potential Therapeutics, Sloan Breedy
Apkcs Role In Neuroblastoma Cell Signaling Cascades And Implications Of Apkcs Inhibitors As Potential Therapeutics, Sloan Breedy
USF Tampa Graduate Theses and Dissertations
Neuroblastoma (NB) is a cancer that develops in the neuroblasts. It is the most common cancer in children under the age of 1 year, accounting for approximately 6% of all cancers. The prognosis of NB is linked to both age and degree of cell differentiation. This results in a range of survival rates for patients, with outcomes ranging from recurrence and mortality to high survival rates and tumor regression. Our previous work indicated that PKC-ι promotes cell proliferation in NB cells through the PKC-ι/Cdk7/Cdk2 cascade. We report on two atypical protein kinase inhibitors as potential therapeutic candidates against BE(2)-C and …
A Multiscale Mechanistic Model Of Human Dendritic Cells For In-Silico Investigation Of Immune Responses And Novel Therapeutics Discovery, Sara Sadat Aghamiri, Bhanwar Lal Puniya, Rada Amin, Tomáš Helikar
A Multiscale Mechanistic Model Of Human Dendritic Cells For In-Silico Investigation Of Immune Responses And Novel Therapeutics Discovery, Sara Sadat Aghamiri, Bhanwar Lal Puniya, Rada Amin, Tomáš Helikar
Department of Biochemistry: Faculty Publications
Dendritic cells (DCs) are professional antigen-presenting cells (APCs) with the unique ability to mediate inflammatory responses of the immune system. Given the critical role of DCs in shaping immunity, they present an attractive avenue as a therapeutic target to program the immune system and reverse immune disease disorders. To ensure appropriate immune response, DCs utilize intricate and complex molecular and cellular interactions that converge into a seamless phenotype. Computational models open novel frontiers in research by integrating large-scale interaction to interrogate the influence of complex biological behavior across scales. The ability to model large biological networks will likely pave the …
Understanding Nanog’S Role In Cell Differentiation, Oluwatobiloba Aminu, Junguk Hur, Bony De Kumar
Understanding Nanog’S Role In Cell Differentiation, Oluwatobiloba Aminu, Junguk Hur, Bony De Kumar
Graduate Research Achievement Day Posters
Background: Pluripotency and differentiation are crucial cellular states for normal development and disease control. They are regulated by intrinsic and extrinsic factors. Master transcription factors, such as Nanog, Sox2, and Oct4, play a critical role in pluripotency, but their function in differentiation is not entirely clear. This study aims to investigate Nanog's role in differentiation using mouse embryonic stem cells as a model.
Methods: An integrative analysis was carried out using gene expression and chromatin immunoprecipitation sequencing data to determine the impact of Nanog binding on downstream gene expression. Target genes were identified as those whose expression was altered by …
Length Of Course-Based Undergraduate Research Experiences (Cure) Impacts Student Learning And Attitudinal Outcomes: A Study Of The Malate Dehydrogenase Cures Community (Mcc), Sue Ellen Dechenne-Peters, John Rakus, Amy D. Parente, Tamara L. Mans, Rebecca Eddy, Nicole Galport, Courtney Koletar, Joseph J. Provost, J. Ellis Bell, Jessica K. Bell
Length Of Course-Based Undergraduate Research Experiences (Cure) Impacts Student Learning And Attitudinal Outcomes: A Study Of The Malate Dehydrogenase Cures Community (Mcc), Sue Ellen Dechenne-Peters, John Rakus, Amy D. Parente, Tamara L. Mans, Rebecca Eddy, Nicole Galport, Courtney Koletar, Joseph J. Provost, J. Ellis Bell, Jessica K. Bell
Biology: Faculty Publications
Course-based undergraduate research experiences (CUREs) are laboratory courses that integrate broadly relevant problems, discovery, use of the scientific process, collaboration, and iteration to provide more students with research experiences than is possible in individually mentored faculty laboratories. Members of the national Malate dehydrogenase CUREs Community (MCC) investigated the differences in student impacts between traditional laboratory courses (control), a short module CURE within traditional laboratory courses (mCURE), and CUREs lasting the entire course (cCURE). The sample included approximately 1,500 students taught by 22 faculty at 19 institutions. We investigated course structures for elements of a CURE and student outcomes including student …
Characterization Of Tick And Host-Associated Factors Linked To Induction Of Alpha-Gal Syndrome., Surendra Raj Sharma, Surendra Raj Sharma
Characterization Of Tick And Host-Associated Factors Linked To Induction Of Alpha-Gal Syndrome., Surendra Raj Sharma, Surendra Raj Sharma
Dissertations
Alpha-Gal Syndrome (AGS) is a delayed allergic reaction caused by specific IgE antibodies to the oligosaccharide galactose-α-1,3-galactose (α-gal) present in red meat. AGS is a growing concern globally, with over 34,000 confirmed cases in the United States alone. Studies have linked AGS to tick bites, which sensitizes hosts against α-gal antigens and elevates α-gal specific IgE. This dissertation investigates the role of tick and host-associated factors in AGS development. Microbiome analysis of Am. americanum ticks revealed a comprehensive core microbiome profile and showed that new Fransiella-like endosymbionts dominate and outcompete conventional tick Coxiella endosymbionts. Ticks subjected to tetracycline treatment showed …
In Silico Binding Of 2-Aminocyclobutanones To Sars-Cov-2 Nsp13 Helicase And Demonstration Of Antiviral Activity, Thahani S. Habeeb Mohammad, Yash Gupta, Cory T. Reidl, Vlad Nicolaescu, Haley Gula, Ravi Durvasula, Prakasha Kempaiah, Daniel P. Becker Ph.D.
In Silico Binding Of 2-Aminocyclobutanones To Sars-Cov-2 Nsp13 Helicase And Demonstration Of Antiviral Activity, Thahani S. Habeeb Mohammad, Yash Gupta, Cory T. Reidl, Vlad Nicolaescu, Haley Gula, Ravi Durvasula, Prakasha Kempaiah, Daniel P. Becker Ph.D.
Chemistry: Faculty Publications and Other Works
The landscape of viral strains and lineages of SARS-CoV-2 keeps changing and is currently dominated by Delta and Omicron variants. Members of the latest Omicron variants, including BA.1, are showing a high level of immune evasion, and Omicron has become a prominent variant circulating globally. In our search for versatile medicinal chemistry scaffolds, we prepared a library of substituted α-aminocyclobutanones from an α-aminocyclobutanone synthon (11). We performed an in silico screen of this actual chemical library as well as other virtual 2-aminocyclobutanone analogs against seven SARS-CoV-2 nonstructural proteins to identify potential drug leads against SARS-CoV-2, and more broadly against coronavirus …
The Molecular And Cellular Response To Acat1/Soat1 Inhibition, Taylor C. Harned
The Molecular And Cellular Response To Acat1/Soat1 Inhibition, Taylor C. Harned
Dartmouth College Ph.D Dissertations
Cholesterol is an important component of all mammalian cell membranes. It governs the membrane’s physical properties and creates the membrane order and heterogeneity required for complex membrane-related processes. Tight regulation of cholesterol levels and distribution are necessary for maintaining proper cell health. Likewise, disruptions in cholesterol homeostasis have been implicated in a variety of diseases, including Alzheimer’s disease (AD). Our lab, and others, have demonstrated the benefits of blocking acyl-CoA:cholesterol acyltransferase1/sterol O:acyltransferase 1 (ACAT1/SOAT1) in AD models by genetic ablation or pharmacological inhibition. We understand that blocking ACAT1/SOAT1 activity reduces amyloid and tau pathology, and that this is, at least …
Anterior And Posterior Tongue Regions And Taste Papillae: Distinct Roles And Regulatory Mechanisms With An Emphasis On Hedgehog Signaling And Antagonism., Archana Kumari, Charlotte M. Mistretta
Anterior And Posterior Tongue Regions And Taste Papillae: Distinct Roles And Regulatory Mechanisms With An Emphasis On Hedgehog Signaling And Antagonism., Archana Kumari, Charlotte M. Mistretta
Rowan-Virtua School of Osteopathic Medicine Departmental Research
Sensory receptors across the entire tongue are engaged during eating. However, the tongue has distinctive regions with taste (fungiform and circumvallate) and non-taste (filiform) organs that are composed of specialized epithelia, connective tissues, and innervation. The tissue regions and papillae are adapted in form and function for taste and somatosensation associated with eating. It follows that homeostasis and regeneration of distinctive papillae and taste buds with particular functional roles require tailored molecular pathways. Nonetheless, in the chemosensory field, generalizations are often made between mechanisms that regulate anterior tongue fungiform and posterior circumvallate taste papillae, without a clear distinction that highlights …
Small Gtpase Regulated Intracellular Protein Trafficking In Endothelium, Caitlin Francis
Small Gtpase Regulated Intracellular Protein Trafficking In Endothelium, Caitlin Francis
Electronic Theses and Dissertations
Intracellular protein trafficking is the movement of membrane-bound organelles to and from requisite locations within the cell. Small GTPases are a critical component to the spatiotemporal accuracy of intracellular trafficking pathways as they determine the specificity and direction of organelle transport. There exists over 150 small GTPases categorized into 5 sub-families and are employed across all cell types. Despite their universal expression and relevance to cellular function, small GTPases remain incompletely understood across tissue types. In various instances, the trafficking pathway of a particular Rab in one cell type may belong to a completely disparate pathway in another cell type. …
Uncovering Zn2+ And Ca2+ Homeostasis And Crosstalk In Primary Hippocampal Neurons, Chen Zhang
Uncovering Zn2+ And Ca2+ Homeostasis And Crosstalk In Primary Hippocampal Neurons, Chen Zhang
Electronic Theses and Dissertations
Zn2+ has been suggested to act as an intracellular signaling molecule due to its regulatory effects on numerous protein targets including enzymes, transcription factors, ion channels, neurotrophic factors, and postsynaptic scaffolding proteins. However, intracellular Zn2+ concentration is tightly maintained at steady levels under natural physiological conditions. Dynamic changes in intracellular Zn2+ concentration have only been detected in cells exposed to pathologic stimuli or upon receptor ligand binding. In the first project of my dissertation, for the first time, we revealed that developing neurons fire spontaneous and synchronous Zn2+ spikes at a specific time window (from 14 …
College Of Natural Sciences Newsletter, February 2023, College Of Natural Sciences
College Of Natural Sciences Newsletter, February 2023, College Of Natural Sciences
College of Natural Sciences Newsletters and Reports
Volume 4, Issue 1
Page 1 Dean's Message
Page 2 Awards and Recognition
Page 3-4 Nobel Recipient Visits Campus
Page 4 Adopting the Pantry
Page 5 Growing a Recruitment Mindset
Page 6 February Outreach Events
Page 7 Media Coverage of CNS
Page 8 Open PRAIRIE Data
Page 9 54th Geography Convention, and Tom Loveland EROS Geography Scholarship
Page 10 Photos of Dr. Carolyn Bertozzi's Visit
A Single-Cell Gene Expression Atlas Of Human Follicular Aspirates: Identification Of Leukocyte Subpopulations And Their Paracrine Factors, Yohan Choi, Hayce Jeon, Mats Brännström, James W. Akin, Thomas E. Curry, Misung Jo
A Single-Cell Gene Expression Atlas Of Human Follicular Aspirates: Identification Of Leukocyte Subpopulations And Their Paracrine Factors, Yohan Choi, Hayce Jeon, Mats Brännström, James W. Akin, Thomas E. Curry, Misung Jo
UK CARES Faculty Publications
Leukocytes are in situ regulators critical for ovarian function. However, little is known about leukocyte subpopulations and their interaction with follicular cells in ovulatory follicles, especially in humans. Single-cell RNA sequencing (scRNA- seq) was performed using follicular aspirates obtained from four IVF patients and identified 13 cell groups: one granulosa cell group, one thecal cell group, 10 subsets of leukocytes, and one group of RBC/platelet. RNA velocity analyses on five granulosa cell populations predicted developmental dynamics denoting two projections of differentiation states. The cell type-specific transcriptomic profiling analyses revealed the presence of a diverse array of leukocyte-derived factors that can …
Editorial: Structure And Function Of Chloroplasts, Volume Iii, Hongbo Gao, Alistair J. Mccormick, Rebecca Roston, Yan Lu
Editorial: Structure And Function Of Chloroplasts, Volume Iii, Hongbo Gao, Alistair J. Mccormick, Rebecca Roston, Yan Lu
Department of Biochemistry: Faculty Publications
Chloroplasts are endosymbiotic organelles derived from cyanobacteria. They have a double envelope membrane, including the outer envelope and the inner envelope. A complex membrane system, thylakoids, exists inside the chloroplast. It is the site of the light-dependent reactions of photosynthesis. The stroma is the main site of the carbon fixation reactions. Although photosynthesis is a very complicated process with many proteins involved, there are many other important processes that occur in chloroplasts, including the regulation of photosynthesis, the biogenesis and maintenance of the structures, carbohydrate, lipid, tetrapyrrole, amino acid, and isoprenoid metabolism, production of some phytohormones, production of specialized metabolites, …
Loss Of Peroxiredoxin Iv Protects Mice From Azoxymethane/Dextran Sulfate Sodium-Induced Colorectal Cancer Development, Pratik Thapa, Hong Jiang, Na Ding, Yanning Hao, Aziza Alshahrani, Eun Young Lee, Junichi Fujii, Qiou Wei
Loss Of Peroxiredoxin Iv Protects Mice From Azoxymethane/Dextran Sulfate Sodium-Induced Colorectal Cancer Development, Pratik Thapa, Hong Jiang, Na Ding, Yanning Hao, Aziza Alshahrani, Eun Young Lee, Junichi Fujii, Qiou Wei
Markey Cancer Center Faculty Publications
Peroxiredoxin IV (Prx4), a typical two-cysteine-containing member of the peroxidase family, functions as an antioxidant to maintain cellular redox homeostasis through the reduction of reactive oxygen species (ROS) via cycles of oxidation–reduction reactions. Under oxidative stress, all Prxs including Prx4 are inactivated as their catalytic cysteines undergo hyperoxidation, and hyperoxidized two-cysteine Prxs can be exclusively repaired and revitalized through the reduction cycle catalyzed by sulfiredoxin (Srx). Previously, we showed that Prx4 is a preferred substrate of Srx, and knockout of Srx in mice leads to resistance to azoxymethane/dextran sulfate sodium (AOM/DSS)-induced colon carcinogenesis. To further understand the significance of the …
Attenuation Of Human Dmc1 Recombination Activities By Substitution Of A Conserved Residue, Melody Hayman
Attenuation Of Human Dmc1 Recombination Activities By Substitution Of A Conserved Residue, Melody Hayman
All Theses
Unrepaired DNA double strand breaks (DSB) are detrimental to the viability of the cell. The repair of DSBs can occur by a process called homologous recombination (HR). HR is used whenever the cell has a homologous template in the way of a homologous chromosome available. The process of HR during mitosis is different from meiotic HR. To initiate meiotic recombination, DSBs are formed and processed to allow proper chromosome segregation and ultimately genetic variation. Meiotic HR is mediated by the meiosis specific recombinase, DMC1. The DMC1 recombinase binds to the 3’ end of a newly resected DSB forming a nucleoprotein …
Latexin Regulates Sex Dimorphism In Hematopoiesis Via Gender-Specific Differential Expression Of Microrna 98-3p And Thrombospondin 1, Xiaojing Cui, Cuiping Zhang, Fang Wang, Xinghui Zhao, Shuxia Wang, Jinpeng Liu, Daheng He, Chi Wang, Feng-Chun Yang, Sheng Tong, Ying Liang
Latexin Regulates Sex Dimorphism In Hematopoiesis Via Gender-Specific Differential Expression Of Microrna 98-3p And Thrombospondin 1, Xiaojing Cui, Cuiping Zhang, Fang Wang, Xinghui Zhao, Shuxia Wang, Jinpeng Liu, Daheng He, Chi Wang, Feng-Chun Yang, Sheng Tong, Ying Liang
Markey Cancer Center Faculty Publications
Hematopoietic stem cells (HSCs) have the ability to self-renew and differentiate to all blood cell types. HSCs and their differentiated progeny show sex/gender differences. The fundamental mechanisms remain largely unexplored. We previously reported that latexin (Lxn) deletion increased HSC survival and repopulation capacity in female mice. Here, we find no differences in HSC function and hematopoiesis in Lxn knockout (Lxn-/- male mice under physiologic and myelosuppressive conditions. We further find that Thbs1, a downstream target gene of Lxn in female HSCs, is repressed in male HSCs. Male-specific high expression of micro- RNA 98-3p (miR98-3p) contributes to Thbs1 suppression in male …
Ferric Chloride-Induced Arterial Thrombosis And Sample Collection For 3d Electron Microscopy Analysis, Smita Joshi, Alexis N. Smith, Kanakanagavalli Shravani Prakhya, Hammodah Rawhi Hammodah Alfar, Joshua Lykins, Ming Zhang, Irina D. Pokrovskaya, Maria A. Aronova, Richard D. Leapman, Brian Storrie, Sidney W. Whiteheart
Ferric Chloride-Induced Arterial Thrombosis And Sample Collection For 3d Electron Microscopy Analysis, Smita Joshi, Alexis N. Smith, Kanakanagavalli Shravani Prakhya, Hammodah Rawhi Hammodah Alfar, Joshua Lykins, Ming Zhang, Irina D. Pokrovskaya, Maria A. Aronova, Richard D. Leapman, Brian Storrie, Sidney W. Whiteheart
Saha Cardiovascular Research Center Faculty Publications
Cardiovascular diseases are a leading cause of mortality and morbidity worldwide. Aberrant thrombosis is a common feature of systemic conditions like diabetes and obesity, and chronic inflammatory diseases like atherosclerosis, cancer, and autoimmune diseases. Upon vascular injury, usually the coagulation system, platelets, and endothelium act in an orchestrated manner to prevent bleeding by forming a clot at the site of the injury. Abnormalities in this process lead to either excessive bleeding or uncontrolled thrombosis/insufficient antithrombotic activity, which translates into vessel occlusion and its sequelae. The FeCl3-induced carotid injury model is a valuable tool in probing how thrombosis initiates and progresses …
Abstract 1858: Active And Allosteric Site Evolution Directs Ordered Water Use In Kinesin Catalysis, Micquel Downs, David Worthylake, Jessica Richard, Courtney Parke, Elizabeth Kim, Edward J. Wojcik, Sunyoung Kim
Abstract 1858: Active And Allosteric Site Evolution Directs Ordered Water Use In Kinesin Catalysis, Micquel Downs, David Worthylake, Jessica Richard, Courtney Parke, Elizabeth Kim, Edward J. Wojcik, Sunyoung Kim
School of Graduate Studies Faculty Publications
2023 American Society for Biochemistry and Molecular Biology (ASBMB) Annual Meeting; March 25 - 28, 2023; Seattle, WA
An Improved Germline Genome Assembly For The Sea Lamprey Petromyzon Marinus Illuminates The Evolution Of Germline-Specific Chromosomes, Nataliya Timoshevskaya, Kaan İ. Eşkut, Vladimir A. Timoshevskiy, Sofia M.C. Robb, Carson Holt, Jon E. Hess, Hugo J. Parker, Cindy F. Baker, Allison K. Miller, Cody Saraceno, Mark Yandell, Robb Krumlauf, Shawn R. Narum, Ralph T. Lampman, Neil J. Gemmell, Jacquelyn Mountcastle, Bettina Haase, Jennifer R. Balacco, Giulio Formenti, Sarah Pelan, Ying Sims, Kerstin Howe, Olivier Fedrigo, Erich D. Jarvis, Jeramiah James Smith
An Improved Germline Genome Assembly For The Sea Lamprey Petromyzon Marinus Illuminates The Evolution Of Germline-Specific Chromosomes, Nataliya Timoshevskaya, Kaan İ. Eşkut, Vladimir A. Timoshevskiy, Sofia M.C. Robb, Carson Holt, Jon E. Hess, Hugo J. Parker, Cindy F. Baker, Allison K. Miller, Cody Saraceno, Mark Yandell, Robb Krumlauf, Shawn R. Narum, Ralph T. Lampman, Neil J. Gemmell, Jacquelyn Mountcastle, Bettina Haase, Jennifer R. Balacco, Giulio Formenti, Sarah Pelan, Ying Sims, Kerstin Howe, Olivier Fedrigo, Erich D. Jarvis, Jeramiah James Smith
Markey Cancer Center Faculty Publications
Programmed DNA loss is a gene silencing mechanism that is employed by several vertebrate and nonvertebrate lineages, including all living jawless vertebrates and songbirds. Reconstructing the evolution of somatically eliminated (germline-specific) sequences in these species has proven challenging due to a high content of repeats and gene duplications in eliminated sequences and a corresponding lack of highly accurate and contiguous assemblies for these regions. Here, we present an improved assembly of the sea lamprey (Petromyzon marinus) genome that was generated using recently standardized methods that increase the contiguity and accuracy of vertebrate genome assemblies. This assembly resolves highly contiguous, somatically …
Chalcone Derivative Cx258 Suppresses Colorectal Cancer Via Inhibiting The Top2a/Wnt/Β-Catenin Signaling, Xi Chen, Xiaocheng Lv, Lijie Gao, Jiawei Liu, Wei Wang, Lichao Guo, Mykhaylo S. Frasinyuk, Wen Zhang, David S. Watt, Chunming Liu, Xifu Liu
Chalcone Derivative Cx258 Suppresses Colorectal Cancer Via Inhibiting The Top2a/Wnt/Β-Catenin Signaling, Xi Chen, Xiaocheng Lv, Lijie Gao, Jiawei Liu, Wei Wang, Lichao Guo, Mykhaylo S. Frasinyuk, Wen Zhang, David S. Watt, Chunming Liu, Xifu Liu
Markey Cancer Center Faculty Publications
The deregulation in the Wnt/β-catenin signaling pathway is associated with many human cancers, particularly colorectal cancer (CRC) and, therefore, represents a promising target for drug development. We have screened over 300 semisynthetic and natural compounds using a Wnt reporter assay and identified a family of novel chalcone derivatives (CXs) that inhibited Wnt signaling and CRC cell proliferation. Among them, we selected CX258 for further in vitro and in vivo study to investigate the molecular mechanisms. We found that CX258 significantly inhibited β-catenin expression and nuclear translocation, inducing cell cycle arrest at the G2/M phase in CRC cells. Additionally, CX258 reduced …
Endogenous Glycoprotein Gpm6a Is Involved In Neurite Outgrowth In Rat Dorsal Root Ganglion Neurons, Gabriela I. Aparicio, Antonella León, Rocío Gutiérrez Fuster, Baylen Ravenscraft, Paula V. Monje, Camila Scorticati
Endogenous Glycoprotein Gpm6a Is Involved In Neurite Outgrowth In Rat Dorsal Root Ganglion Neurons, Gabriela I. Aparicio, Antonella León, Rocío Gutiérrez Fuster, Baylen Ravenscraft, Paula V. Monje, Camila Scorticati
Markey Cancer Center Faculty Publications
The peripheral nervous system (PNS) has a unique ability for self-repair. Dorsal root ganglion (DRG) neurons regulate the expression of different molecules, such as neurotrophins and their receptors, to promote axon regeneration after injury. However, the molecular players driving axonal regrowth need to be better defined. The membrane glycoprotein GPM6a has been described to contribute to neuronal development and structural plasticity in central-nervous-system neurons. Recent evidence indicates that GPM6a interacts with molecules from the PNS, although its role in DRG neurons remains unknown. Here, we characterized the expression of GPM6a in embryonic and adult DRGs by combining analysis of public …
Kegg_Pull: A Software Package For The Restful Access And Pulling From The Kyoto Encyclopedia Of Gene And Genomes, Erik D. Huckvale, Hunter N. B. Moseley
Kegg_Pull: A Software Package For The Restful Access And Pulling From The Kyoto Encyclopedia Of Gene And Genomes, Erik D. Huckvale, Hunter N. B. Moseley
Markey Cancer Center Faculty Publications
Background: The Kyoto Encyclopedia of Genes and Genomes (KEGG) provides organized genomic, biomolecular, and metabolic information and knowledge that is reasonably current and highly useful for a wide range of analyses and modeling. KEGG follows the principles of data stewardship to be findable, accessible, interoperable, and reusable (FAIR) by providing RESTful access to their database entries via their web-accessible KEGG API. However, the overall FAIRness of KEGG is often limited by the library and software package support available in a given programming language. While R library support for KEGG is fairly strong, Python library support has been lacking. Moreover, there …
Allometry Of Bud Dynamic Pattern And Linkage Between Bud Traits And Ecological Stoichiometry Of Nitraria Tangutorum Under Fertilizer Addition, Qinghe Le, Na Duan, Chenggong Liu, Huiqing Li, Lan Xu
Allometry Of Bud Dynamic Pattern And Linkage Between Bud Traits And Ecological Stoichiometry Of Nitraria Tangutorum Under Fertilizer Addition, Qinghe Le, Na Duan, Chenggong Liu, Huiqing Li, Lan Xu
Natural Resource Management Faculty Publications
Affected by the pressure and constraints of available resources, plant growth and development, as well as plant life history strategies, usually vary with environmental conditions. Plant buds play a crucial role in the life history of woody plants. Nitraria tangutorum is a common dominant woody species in desertified areas of northern China and its growth is critical to the desert ecosystem. Revealing the allometry of N. tangutorum aboveground bud fates and the linkage between bud traits and plant nutrient contents and stoichiometric ratios can be useful in understanding plant adaptation strategy. We applied seven nitrogen and phosphorus fertilizer addition treatments …
Cholesterol In Class C Gpcrs: Role, Relevance, And Localization, Ugochi H. Isu, Shadi A. Badiee, Ehsaneh Khodadadi, Mahmoud Moradi
Cholesterol In Class C Gpcrs: Role, Relevance, And Localization, Ugochi H. Isu, Shadi A. Badiee, Ehsaneh Khodadadi, Mahmoud Moradi
Chemistry & Biochemistry Faculty Publications and Presentations
G-protein coupled receptors (GPCRs), one of the largest superfamilies of cell-surface receptors, are heptahelical integral membrane proteins that play critical roles in virtually every organ system. G-protein-coupled receptors operate in membranes rich in cholesterol, with an imbalance in cholesterol level within the vicinity of GPCR transmembrane domains affecting the structure and/or function of many GPCRs, a phenomenon that has been linked to several diseases. These effects of cholesterol could result in indirect changes by altering the mechanical properties of the lipid environment or direct changes by binding to specific sites on the protein. There are a number of studies and …