Biochemical Activity of 17 Cancer-Associated Variants of DNA Polymerase Kappa Predicted by Electrostatic Properties

Electrostatic fingerprints of catalytically active amino acids in enzymes

(2022) Suhasini M. Iyengar et al.   PROTEIN SCIENCE

Amino acid interactions that facilitate enzyme catalysis

(2021) Timothy A. Coulther et al.   JOURNAL OF CHEMICAL PHYSICS

Exome sequencing identifies ARID2 as a novel tumor suppressor in early-onset sporadic rectal cancer

(2020) Pratyusha Bala et al.   ONCOGENE

Mammalian DNA Polymerase Kappa Activity and Specificity

(2019) Hannah R. Stern et al.   MOLECULES

Extensive disruption of protein interactions by genetic variants across the allele frequency spectrum in human populations

(2019) Robert Fragoza et al.   Nature Communications

Prediction of Active Site and Distal Residues in E. coli DNA Polymerase III alpha Polymerase Activity

(2018) Ramya Parasuram et al.   BIOCHEMISTRY

Chemistry-First Approach for Nomination of Personalized Treatment in Lung Cancer

(2018) Elizabeth A. McMillan et al.   CELL

Characterization of nine cancer-associated variants in human DNA polymerase κ

(2018) Nicole M. Antczak et al.   CHEMICAL RESEARCH IN TOXICOLOGY

Evaluation of computational techniques for predicting non-synonymous single nucleotide variants pathogenicity

(2018) Marwa S. Hassan et al.   GENOMICS

The landscape of somatic mutation in sporadic Chinese colorectal cancer

(2018) Zhe Liu et al.   Oncotarget

2.0 Å resolution crystal structure of human polκ reveals a new catalytic function of N-clasp in DNA replication

(2018) Vikash Jha et al.   Scientific Reports

COSMIC: the Catalogue Of Somatic Mutations In Cancer

(2018) John G Tate et al.   NUCLEIC ACIDS RESEARCH

Whole-genome landscapes of major melanoma subtypes

(2017) Nicholas K. Hayward et al.   NATURE

Six Germline Genetic Variations Impair the Translesion Synthesis Activity of Human DNA Polymerase κ

(2016) Jae-Kwon Kim et al.   CHEMICAL RESEARCH IN TOXICOLOGY

Association Between Single Nucleotide Polymorphisms in DNA Polymerase Kappa Gene and Breast Cancer Risk in Chinese Han Population

(2016) Zhi-Jun Dai et al.   MEDICINE

Genomic analysis identifies new drivers and progression pathways in skin basal cell carcinoma

(2016) Ximena Bonilla et al.   NATURE GENETICS

Genetically-defined novel oral squamous cell carcinoma cell lines for the development of molecular therapies

(2016) Muhammad Zaki Hidayatullah Fadlullah et al.   Oncotarget

Ampullary Cancers Harbor ELF3 Tumor Suppressor Gene Mutations and Exhibit Frequent WNT Dysregulation

(2016) Marie-Claude Gingras et al.   Cell Reports

Genomic Correlates of Immune-Cell Infiltrates in Colorectal Carcinoma

(2016) Marios Giannakis et al.   Cell Reports

An integrative approach to predicting the functional effects of non-coding and coding sequence variation

(2015) Hashem A. Shihab et al.   BIOINFORMATICS

MAESTRO - multi agent stability prediction upon point mutations

(2015) Josef Laimer et al.   BMC BIOINFORMATICS

Steric gate residues of Y-family DNA polymerases DinB and pol kappa are crucial for dNTP-induced conformational change

(2015) Philip Nevin et al.   DNA REPAIR

Noncognate DNA damage prevents the formation of the active conformation of the Y-family DNA polymerases DinB and DNA polymerase κ

(2015) Philip Nevin et al.   FEBS Journal

Somatic Mutations in Catalytic Core ofPOLKReported in Prostate Cancer Alter Translesion DNA Synthesis

(2015) Santosh Yadav et al.   HUMAN MUTATION

Prediction of distal residue participation in enzyme catalysis

(2015) Heather R. Brodkin et al.   PROTEIN SCIENCE

An Overview of Y-Family DNA Polymerases and a Case Study of Human DNA Polymerase η

(2014) Wei Yang   BIOCHEMISTRY

Colorectal Cancer Cell Lines Are Representative Models of the Main Molecular Subtypes of Primary Cancer

(2014) D. Mouradov et al.   CANCER RESEARCH

Association of POLK Polymorphisms with Platinum-Based Chemotherapy Response and Severe Toxicity in Non-small Cell Lung Cancer Patients

(2014) Minhua Shao et al.   CELL BIOCHEMISTRY AND BIOPHYSICS

Biochemical Characterization of Eight Genetic Variants of Human DNA Polymerase κ Involved in Error-Free Bypass across Bulky N2-Guanyl DNA Adducts

(2014) Insil Song et al.   CHEMICAL RESEARCH IN TOXICOLOGY

Mutational Landscape of Aggressive Cutaneous Squamous Cell Carcinoma

(2014) C. R. Pickering et al.   CLINICAL CANCER RESEARCH

Structure-based approach to the prediction of disulfide bonds in proteins

(2014) Noeris K. Salam et al.   PROTEIN ENGINEERING DESIGN & SELECTION

Discrimination against major groove adducts by Y-family polymerases of the DinB subfamily

(2013) Jason M. Walsh et al.   DNA REPAIR

Integrated molecular analysis of clear-cell renal cell carcinoma

(2013) Yusuke Sato et al.   NATURE GENETICS

The Genetic Landscape of Clinical Resistance to RAF Inhibition in Metastatic Melanoma

(2013) E. M. Van Allen et al.   Cancer Discovery

POOL server: machine learning application for functional site prediction in proteins

(2012) Srinivas Somarowthu et al.   BIOINFORMATICS

Effects of non-catalytic, distal amino acid residues on activity ofE. coliDinB (DNA polymerase IV)

(2012) Jason M. Walsh et al.   ENVIRONMENTAL AND MOLECULAR MUTAGENESIS

Predicting the Functional, Molecular, and Phenotypic Consequences of Amino Acid Substitutions using Hidden Markov Models

(2012) Hashem A. Shihab et al.   HUMAN MUTATION

Comprehensive molecular characterization of human colon and rectal cancer

(2012)   NATURE

The mutational landscape of lethal castration-resistant prostate cancer

(2012) Catherine S. Grasso et al.   NATURE

Y-family DNA polymerases and their role in tolerance of cellular DNA damage

(2012) Julian E. Sale et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

SIFT web server: predicting effects of amino acid substitutions on proteins

(2012) Ngak-Leng Sim et al.   NUCLEIC ACIDS RESEARCH

High-performance prediction of functional residues in proteins with machine learning and computed input features

(2011) Srinivas Somarowthu et al.   BIOPOLYMERS

Multiple two-polymerase mechanisms in mammalian translesion DNA synthesis

(2011) Zvi Livneh et al.   CELL CYCLE

The Y-Family DNA Polymerase Dpo4 Uses a Template Slippage Mechanism To Create Single-Base Deletions

(2011) Y. Wu et al.   JOURNAL OF BACTERIOLOGY

Structural diversity of the Y-family DNA polymerases

(2010) Janice D. Pata   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Using SIFT and PolyPhen to Predict Loss-of-Function and Gain-of-Function Mutations

(2010) Sarah E. Flanagan et al.   Genetic Testing and Molecular Biomarkers

Three DNA Polymerases, Recruited by Different Mechanisms, Carry Out NER Repair Synthesis in Human Cells

(2010) Tomoo Ogi et al.   MOLECULAR CELL

Ensembl 2011

(2010) P. Flicek et al.   NUCLEIC ACIDS RESEARCH

Structural and Functional Elucidation of the Mechanism Promoting Error-prone Synthesis by Human DNA Polymerase κ Opposite the 7,8-Dihydro-8-oxo-2′-deoxyguanosine Adduct

(2009) Adriana Irimia et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Partial Order Optimum Likelihood (POOL): Maximum Likelihood Prediction of Protein Active Site Residues Using 3D Structure and Sequence Properties

(2009) Wenxu Tong et al.   PLoS Computational Biology

Mechanism and Dynamics of Translesion DNA Synthesis Catalyzed by theEscherichia coliKlenow Fragment†

(2008) Asim Sheriff et al.   BIOCHEMISTRY

Kinetic Analysis of Translesion Synthesis Opposite BulkyN2- andO6-Alkylguanine DNA Adducts by Human DNA Polymerase REV1

(2008) Jeong-Yun Choi et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Efficient and accurate bypass of N2-(1-carboxyethyl)-2'-deoxyguanosine by DinB DNA polymerase in vitro and in vivo

(2008) B. Yuan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Enhanced performance in prediction of protein active sites with THEMATICS and support vector machines

(2007) Wenxu Tong et al.   PROTEIN SCIENCE

QMEAN: A comprehensive scoring function for model quality assessment

(2007) Pascal Benkert et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS