Small changes in free energy assignments for unpaired bases do not affect predicted secondary structures in single stranded RNA. - Ruth Nussinov; Ignacio Tinoco Jr.; A. B. Jacobson (Nucleic Acids Res., 1982)

Secondary structure model for the complete simian virus 50 late precursor mRNA. - Ruth Nussinov; Ignacio Tinoco Jr.; A. B. Jacobson (Nucleic Acids Res., 1982)

An accelerated algorithm for calculating the secondary structure of single stranded RNAs. - Eliahu Comay; Ruth Nussinov; Oded Comay (Nucleic Acids Res., 1984)

An efficient string matching algorithm with k differences for nucleotide and amino acid sequences. - Gad M. Landau; Uzi Vishkin; Ruth Nussinov (Nucleic Acids Res., 1986)

A sequence analysis system encompassing rules for DNA helical distortion. - Bruce A. Shapiro; Ruth Nussinov; Lewis E. Lipkin; Jacob V. Maizel (Nucleic Acids Res., 1986)

Locating alignments with k differences for nucleotide and amino acid sequences. - Gad M. Landau; Uzi Vishkin; Ruth Nussinov (Comput. Appl. Biosci., 1988)

An improved secondary structure computation method and its application to intervening sequence in the human alpha-likeglobin mRNA precursors. - Shu-Yun Le; Jih-Hsiang Chen; Ruth Nussinov; Jacob V. Maizel (Comput. Appl. Biosci., 1988)

A fixed-point alignment technique for detection of recurrent and common sequence motifs associated with biological features. - John Owens; Devjani Chatterjee; Ruth Nussinov; Andrzej K. Konopka; Jacob V. Maizel (Comput. Appl. Biosci., 1988)

RNA secondary structures: comparison and determination of frequently recurring substructures by consensus. - Shu-Yun Le; John Owens; Ruth Nussinov; Jih-Hsiang Chen; Bruce A. Shapiro; Jacob V. Maizel (Comput. Appl. Biosci., 1989)

Compositional variations in DNA sequences. - Ruth Nussinov (Comput. Appl. Biosci., 1991)

Signals in DNA sequences and their potential properties. - Ruth Nussinov (Comput. Appl. Biosci., 1991)

3-D Substructure Matching in Protein Molecules. - Daniel Fischer 001; Ruth Nussinov; Haim J. Wolfson (CPM, 1992)

3-D Docking of Protein Molecules. - Daniel Fischer 001; Raquel Norel; Ruth Nussinov; Haim J. Wolfson (CPM, 1993)

Docking of protein molecules. - Daniel Fischer 001; Shuo L. Lin; Ruth Nussinov; Haim J. Wolfson (ICPR (2), 1994)

An automated computer vision and robotics-based technique for 3-D flexible biomolecular docking and matching. - Bilha Sandak; Ruth Nussinov; Haim J. Wolfson (Comput. Appl. Biosci., 1995)

Docking of Conformationally Flexible Proteins. - Bilha Sandak; Ruth Nussinov; Haim J. Wolfson (CPM, 1996)

[Invited Lecture] Structural motifs in the interior and on the surfaces of protein monomers and at protein-protein interfaces. - Ruth Nussinov; Raquel Norel; Bilha Sandak; George Verbitsky; Haim J. Wolfson (German Conference on Bioinformatics, 1998)

A Method for Biomolecular Structural Recognition and Docking Allowing Conformational Flexibility. - Bilha Sandak; Ruth Nussinov; Haim J. Wolfson (J. Comput. Biol., 1998)

Multiple Structural Alignment and Core Detection by Geometric Hashing. - Nathaniel Leibowitz; Zipora Y. Fligelman; Ruth Nussinov; Haim J. Wolfson (ISMB, 1999)

Alignment of Flexible Protein Structures. - Maxim Shatsky; Zipora Y. Fligelman; Ruth Nussinov; Haim J. Wolfson (ISMB, 2000)

Protein flexibility and electrostatic interactions. - Sandeep Kumar; Haim J. Wolfson; Ruth Nussinov (IBM J. Res. Dev., 2001)

A hierarchical, building-block-based computational scheme for protein structure prediction. - Chung-Jung Tsai; Buyong Ma; Yuk Yin Sham; Sandeep Kumar; Haim J. Wolfson; Ruth Nussinov (IBM J. Res. Dev., 2001)

MUSTA - A General, Efficient, Automated Method for Multiple Structure Alignment and Detection of Common Motifs: Application to Proteins. - Nathaniel Leibowitz; Ruth Nussinov; Haim J. Wolfson (J. Comput. Biol., 2001)

Efficient Unbound Docking of Rigid Molecules. - Dina Duhovny; Ruth Nussinov; Haim J. Wolfson (WABI, 2002)

MultiProt - A Multiple Protein Structural Alignment Algorithm. - Maxim Shatsky; Ruth Nussinov; Haim J. Wolfson (WABI, 2002)

MASS: multiple structural alignment by secondary structures. - Oranit Dror; Hadar Benyamini; Ruth Nussinov; Haim J. Wolfson (ISMB (Supplement of Bioinformatics), 2003)

Protein structure prediction via combinatorial assembly of sub-structural units. - Yuval Inbar; Hadar Benyamini; Ruth Nussinov; Haim J. Wolfson (ISMB (Supplement of Bioinformatics), 2003)

Protein-Protein Interfaces: Recognition of Similar Spatial and Chemical Organizations. - Alexandra Shulman-Peleg; Shira Mintz; Ruth Nussinov; Haim J. Wolfson (WABI, 2004)

FlexProt: Alignment of Flexible Protein Structures Without a Predefinition of Hinge Regions. - Maxim Shatsky; Ruth Nussinov; Haim J. Wolfson (J. Comput. Biol., 2004)

BioInfo3D: a suite of tools for structural bioinformatics. - Maxim Shatsky; Oranit Dror; Dina Schneidman-Duhovny; Ruth Nussinov; Haim J. Wolfson (Nucleic Acids Res., 2004)

MAPPIS: Multiple 3D Alignment of Protein-Protein Interfaces. - Alexandra Shulman-Peleg; Maxim Shatsky; Ruth Nussinov; Haim J. Wolfson (CompLife, 2005)

ARTS: alignment of RNA tertiary structures. - Oranit Dror; Ruth Nussinov; Haim J. Wolfson (ECCB/JBI, 2005)

Recognition of Binding Patterns Common to a Set of Protein Structures. - Maxim Shatsky; Alexandra Shulman-Peleg; Ruth Nussinov; Haim J. Wolfson (RECOMB, 2005)

Discovery of Protein Substructures in EM Maps. - Keren Lasker; Oranit Dror; Ruth Nussinov; Haim J. Wolfson (WABI, 2005)

Multiple Docking for Protein Structure Prediction. - Yuval Inbar; Haim J. Wolfson; Ruth Nussinov (Int. J. Robotics Res., 2005)

PRISM: protein interactions by structural matching. - Utkan Ogmen; Ozlem Keskin; A. Selim Aytuna; Ruth Nussinov; Attila Gürsoy (Nucleic Acids Res., 2005)

PatchDock and SymmDock: servers for rigid and symmetric docking. - Dina Schneidman-Duhovny; Yuval Inbar; Ruth Nussinov; Haim J. Wolfson (Nucleic Acids Res., 2005)

SiteEngines: recognition and comparison of binding sites and protein-protein interfaces. - Alexandra Shulman-Peleg; Ruth Nussinov; Haim J. Wolfson (Nucleic Acids Res., 2005)

A permissive secondary structure-guided superposition tool for clustering of protein fragments toward protein structure prediction via fragment assembly. - Gilad Wainreb; Nurit Haspel; Haim J. Wolfson; Ruth Nussinov (Bioinform., 2006)

The Multiple Common Point Set Problem and Its Application to Molecule Binding Pattern Detection. - Maxim Shatsky; Alexandra Shulman-Peleg; Ruth Nussinov; Haim J. Wolfson (J. Comput. Biol., 2006)

The ARTS web server for aligning RNA tertiary structures. - Oranit Dror; Ruth Nussinov; Haim J. Wolfson (Nucleic Acids Res., 2006)

Designing a Nanotube Using Naturally Occurring Protein Building Blocks. - Chung-Jung Tsai; Jie Zheng 003; Ruth Nussinov (PLoS Comput. Biol., 2006)

Ligand Binding and Circular Permutation Modify Residue Interaction Network in DHFR. - Zengjian Hu; Donnell Bowen; William M. Southerland; Antonio del Sol; Yongping Pan; Ruth Nussinov; Buyong Ma (PLoS Comput. Biol., 2007)

EMatch: Discovery of High Resolution Structural Homologues of Protein Domains in Intermediate Resolution Cryo-EM Maps. - Keren Lasker; Oranit Dror; Maxim Shatsky; Ruth Nussinov; Haim J. Wolfson (IEEE ACM Trans. Comput. Biol. Bioinform., 2007)

Principles of Protein Recognition and Properties of Protein-protein Interfaces. - Ozlem Keskin; Attila Gürsoy; Ruth Nussinov (Protein-protein Interactions and Networks, 2008)

Bio-geometry: challenges, approaches, and future opportunities in proteomics and drug discovery. - Ruth Nussinov; Tao Ju; Talapady Bhat; Jack Snoeyink; Karthik Ramani (Symposium on Solid and Physical Modeling, 2008)

Structural similarity of genetically interacting proteins. - Oranit Dror; Dina Schneidman-Duhovny; Alexandra Shulman-Peleg; Ruth Nussinov; Haim J. Wolfson; Roded Sharan (BMC Syst. Biol., 2008)

Deterministic Pharmacophore Detection via Multiple Flexible Alignment of Drug-Like Molecules. - Dina Schneidman-Duhovny; Oranit Dror; Yuval Inbar; Ruth Nussinov; Haim J. Wolfson (J. Comput. Biol., 2008)

Application of 1-Aminocyclohexane Carboxylic Acid to Protein Nanostructure Computer Design. - Francisco Rodríguez-Ropero; David Zanuy; Jordi Casanovas; Ruth Nussinov; Carlos Alemán (J. Chem. Inf. Model., 2008)

FireDock: a web server for fast interaction refinement in molecular docking. - Efrat Mashiach; Dina Schneidman-Duhovny; Nelly Andrusier; Ruth Nussinov; Haim J. Wolfson (Nucleic Acids Res., 2008)

PharmaGist: a webserver for ligand-based pharmacophore detection. - Dina Schneidman-Duhovny; Oranit Dror; Yuval Inbar; Ruth Nussinov; Haim J. Wolfson (Nucleic Acids Res., 2008)

MultiBind and MAPPIS: webservers for multiple alignment of protein 3D-binding sites and their interactions. - Alexandra Shulman-Peleg; Maxim Shatsky; Ruth Nussinov; Haim J. Wolfson (Nucleic Acids Res., 2008)

MolAxis: a server for identification of channels in macromolecules. - Eitan Yaffe; Dan Fishelovitch; Haim J. Wolfson; Dan Halperin; Ruth Nussinov (Nucleic Acids Res., 2008)

A survey of available tools and web servers for analysis of protein-protein interactions and interfaces. - Nurcan Tuncbag; Gozde Kar; Ozlem Keskin; Attila Gürsoy; Ruth Nussinov (Briefings Bioinform., 2009)

Novel Approach for Efficient Pharmacophore-Based Virtual Screening: Method and Applications. - Oranit Dror; Dina Schneidman-Duhovny; Yuval Inbar; Ruth Nussinov; Haim J. Wolfson (J. Chem. Inf. Model., 2009)

Protein Segments with Conformationally Restricted Amino Acids Can Control Supramolecular Organization at the Nanoscale. - David Zanuy; Gema Ballano; Ana I. Jiménez; Jordi Casanovas; Nurit Haspel; Carlos Cativiela; David Curcó; Ruth Nussinov; Carlos Alemán (J. Chem. Inf. Model., 2009)

RsiteDB: a database of protein binding pockets that interact with RNA nucleotide bases. - Alexandra Shulman-Peleg; Ruth Nussinov; Haim J. Wolfson (Nucleic Acids Res., 2009)

The Mechanism of Ubiquitination in the Cullin-RING E3 Ligase Machinery: Conformational Control of Substrate Orientation. - Jin Liu 005; Ruth Nussinov (PLoS Comput. Biol., 2009)

Cooperativity Dominates the Genomic Organization of p53-Response Elements: A Mechanistic View. - Yongping Pan; Ruth Nussinov (PLoS Comput. Biol., 2009)

Conformational Profile of a Proline-Arginine Hybrid. - Guillem Revilla-López; Ana I. Jiménez; Carlos Cativiela; Ruth Nussinov; Carlos Alemán; David Zanuy (J. Chem. Inf. Model., 2010)

CCRXP: exploring clusters of conserved residues in protein structures. - Shandar Ahmad; Ozlem Keskin; Kenji Mizuguchi; Akinori Sarai; Ruth Nussinov (Nucleic Acids Res., 2010)

FiberDock: a web server for flexible induced-fit backbone refinement in molecular docking. - Efrat Mashiach; Ruth Nussinov; Haim J. Wolfson (Nucleic Acids Res., 2010)

Lysine120 Interactions with p53 Response Elements can Allosterically Direct p53 Organization. - Yongping Pan; Ruth Nussinov (PLoS Comput. Biol., 2010)

A Mechanistic View of the Role of E3 in Sumoylation. - Melda Tozluoglu; Ezgi Karaca; Ruth Nussinov; Türkan Haliloglu (PLoS Comput. Biol., 2010)

GOSSIP: a method for fast and accurate global alignment of protein structures. - Ilona Kifer; Ruth Nussinov; Haim J. Wolfson (Bioinform., 2011)

A Formal MIM Specification and Tools for the Common Exchange of MIM Diagrams: an XML-Based Format, an API, and a Validation Method. - Augustin Luna; Evrim I. Karac; Margot Sunshine; Lucas Chang; Ruth Nussinov; Mirit I. Aladjem; Kurt W. Kohn (BMC Bioinform., 2011)

A simulation strategy for the atomistic modeling of flexible molecules covalently tethered to rigid surfaces: Application to peptides. - David Curcó; David Zanuy; Ruth Nussinov; Carlos Alemán (J. Comput. Chem., 2011)

A Review of 2010 for PLoS Computational Biology. - Rosemary Dickin; Cecy Marden; Andrew M. Collings; Ruth Nussinov; Philip E. Bourne (PLoS Comput. Biol., 2011)

The Role of Response Elements Organization in Transcription Factor Selectivity: The IFN-β Enhanceosome Example. - Yongping Pan; Ruth Nussinov (PLoS Comput. Biol., 2011)

Structure and dynamics of molecular networks: A novel paradigm of drug discovery. A comprehensive review - Peter Csermely; Tamás Korcsmáros; Huba J. M. Kiss; Gabor London; Ruth Nussinov (CoRR, 2012)

A Strategy Based on Protein-Protein Interface Motifs May Help in Identifying Drug Off-Targets. - Billur Engin; Ozlem Keskin; Ruth Nussinov; Attila Gürsoy (J. Chem. Inf. Model., 2012)

A Review of 2011 for PLoS Computational Biology. - Rosemary Dickin; Chris James Hall; Laura K. Taylor; Andrew M. Collings; Ruth Nussinov; Philip E. Bourne (PLoS Comput. Biol., 2012)

Conformational Control of the Binding of the Transactivation Domain of the MLL Protein and c-Myb to the KIX Domain of CREB. - Elif Nihal Korkmaz; Ruth Nussinov; Türkan Haliloglu (PLoS Comput. Biol., 2012)

A Future Vision for PLOS Computational Biology. - Ruth Nussinov (PLoS Comput. Biol., 2012)

Engineering strategy to improve peptide analogs: from structure-based computational design to tumor homing. - David Zanuy; Francisco J. Sayago; Guillem Revilla-López; Gema Ballano; Lilach Agemy; Venkata Ramana Kotamraju; Ana I. Jiménez; Carlos Cativiela; Ruth Nussinov; April M. Sawvel; Galen Stucky; Erkki Ruoslahti; et al. (J. Comput. Aided Mol. Des., 2013)

New Methods Section in PLOS Computational Biology. - Thomas Lengauer; Ruth Nussinov (PLoS Comput. Biol., 2013)

How Can PLOS Computational Biology Help the Biological Sciences? - Ruth Nussinov (PLoS Comput. Biol., 2013)

MIMTool: A Tool for Drawing Molecular Interaction Maps. - Mine Edes; Can C. Özturan; Türkan Haliloglu; Augustin Luna; Ruth Nussinov (CoRR, 2014)

PRISM: a web server and repository for prediction of protein-protein interactions and modeling their 3D complexes. - Alper Baspinar; Engin Cukuroglu; Ruth Nussinov; Ozlem Keskin; Attila Gürsoy (Nucleic Acids Res., 2014)

Making Biomolecular Simulations Accessible in the Post-Nobel Prize Era. - Qiang Cui; Ruth Nussinov (PLoS Comput. Biol., 2014)

The Structural Basis of ATP as an Allosteric Modulator. - Shaoyong Lu; Wenkang Huang; Qi Wang; Qiancheng Shen; Shuai Li; Ruth Nussinov; Jian Zhang 037 (PLoS Comput. Biol., 2014)

The Significance of the 2013 Nobel Prize in Chemistry and the Challenges Ahead. - Ruth Nussinov (PLoS Comput. Biol., 2014)

The Structural Pathway of Interleukin 1 (IL-1) Initiated Signaling Reveals Mechanisms of Oncogenic Mutations and SNPs in Inflammation and Cancer. - Saliha Ece Acuner Ozbabacan; Attila Gürsoy; Ruth Nussinov; Ozlem Keskin (PLoS Comput. Biol., 2014)

A Unified View of "How Allostery Works". - Chung-Jung Tsai; Ruth Nussinov (PLoS Comput. Biol., 2014)

Defining the Domain Arrangement of the Mammalian Target of Rapamycin Complex Component Rictor Protein. - Ping Zhou; Ning Zhang; Ruth Nussinov; Buyong Ma (J. Comput. Biol., 2015)

Coupling of Zinc-Binding and Secondary Structure in Nonfibrillar Aβ40 Peptide Oligomerization. - Liang Xu; Shengsheng Shan; Yonggang Chen; Xiaojuan Wang; Ruth Nussinov; Buyong Ma (J. Chem. Inf. Model., 2015)

Mapping the Conformation Space of Wildtype and Mutant H-Ras with a Memetic, Cellular, and Multiscale Evolutionary Algorithm. - Rudy Clausen; Buyong Ma; Ruth Nussinov; Amarda Shehu (PLoS Comput. Biol., 2015)

How to Write a Presubmission Inquiry. - Thomas Lengauer; Ruth Nussinov (PLoS Comput. Biol., 2015)

Advancements and Challenges in Computational Biology. - Ruth Nussinov (PLoS Comput. Biol., 2015)

From "What Is?" to "What Isn't?" Computational Biology. - Ruth Nussinov; Sebastian Bonhoeffer; Jason A. Papin; Olaf Sporns (PLoS Comput. Biol., 2015)

Computational Methods for Exploration and Analysis of Macromolecular Structure and Dynamics. - Amarda Shehu; Ruth Nussinov (PLoS Comput. Biol., 2015)

Genome Landscapes of Disease: Strategies to Predict the Phenotypic Consequences of Human Germline and Somatic Variation. - Rachel Karchin; Ruth Nussinov (PLoS Comput. Biol., 2016)

Allostery: An Overview of Its History, Concepts, Methods, and Applications. - Jin Liu 005; Ruth Nussinov (PLoS Comput. Biol., 2016)

Principles and Overview of Sampling Methods for Modeling Macromolecular Structure and Dynamics. - Tatiana Maximova; Ryan Moffatt; Buyong Ma; Ruth Nussinov; Amarda Shehu (PLoS Comput. Biol., 2016)

Computing Biology. - Ruth Nussinov; Jason A. Papin (PLoS Comput. Biol., 2016)

Structural host-microbiota interaction networks. - Emine Guven-Maiorov; Chung-Jung Tsai; Ruth Nussinov (PLoS Comput. Biol., 2017)

Network approaches and applications in biology. - Trey Ideker; Ruth Nussinov (PLoS Comput. Biol., 2017)

How can computation advance microbiome research? - Ruth Nussinov; Jason A. Papin (PLoS Comput. Biol., 2017)

Computing the Dynamic Supramolecular Structural Proteome. - Ruth Nussinov; Jason A. Papin; Ilya A. Vakser (PLoS Comput. Biol., 2017)

deepDR: a network-based deep learning approach to in silico drug repositioning. - Xiangxiang Zeng; Siyi Zhu; Xiangrong Liu; Yadi Zhou; Ruth Nussinov; Feixiong Cheng (Bioinform., 2019)

Review: Precision medicine and driver mutations: Computational methods, functional assays and conformational principles for interpreting cancer drivers. - Ruth Nussinov; Hyunbum Jang; Chung-Jung Tsai; Feixiong Cheng (PLoS Comput. Biol., 2019)

Correction: Review: Precision medicine and driver mutations: Computational methods, functional assays and conformational principles for interpreting cancer drivers. - Ruth Nussinov; Hyunbum Jang; Chung-Jung Tsai; Feixiong Cheng (PLoS Comput. Biol., 2019)

Protein ensembles link genotype to phenotype. - Ruth Nussinov; Chung-Jung Tsai; Hyunbum Jang (PLoS Comput. Biol., 2019)

A component overlapping attribute clustering (COAC) algorithm for single-cell RNA sequencing data analysis and potential pathobiological implications. - He Peng; Xiangxiang Zeng; Yadi Zhou; Defu Zhang; Ruth Nussinov; Feixiong Cheng (PLoS Comput. Biol., 2019)

Network-based prediction of drug-target interactions using an arbitrary-order proximity embedded deep forest. - Xiangxiang Zeng; Siyi Zhu; Yuan Hou; Pengyue Zhang; Lang Li 001; Jing Li; L. Frank Huang; Stephen J. Lewis; Ruth Nussinov; Feixiong Cheng (Bioinform., 2020)

Individualized genetic network analysis reveals new therapeutic vulnerabilities in 6, 700 cancer genomes. - Chuang Liu 001; Junfei Zhao; Weiqiang Lu; Yao Dai; Jennifer Hockings; Yadi Zhou; Ruth Nussinov; Charis Eng; Feixiong Cheng (PLoS Comput. Biol., 2020)

Antigen Binding Reshapes Antibody Energy Landscape and Conformation Dynamics. - Kazi Lutful Kabir; Ruth Nussinov; Buyong Ma; Amarda Shehu (BIBM, 2021)

A network-based deep learning methodology for stratification of tumor mutations. - Chuang Liu 001; Zhen Han; Zi-Ke Zhang; Ruth Nussinov; Feixiong Cheng (Bioinform., 2021)

MSA-Regularized Protein Sequence Transformer toward Predicting Genome-Wide Chemical-Protein Interactions: Application to GPCRome Deorphanization. - Tian Cai; Hansaim Lim; Kyra Alyssa Abbu; Yue Qiu 002; Ruth Nussinov; Lei Xie 006 (J. Chem. Inf. Model., 2021)

SARS-CoV-2 Interactome 3D: A Web interface for 3D visualization and analysis of SARS-CoV-2-human mimicry and interactions. - Damla Ovek; Ameer Taweel; Zeynep Abali; Ece Tezsezen; Yunus Emre Koroglu; Chung-Jung Tsai; Ruth Nussinov; Ozlem Keskin; Attila Gürsoy (Bioinform., 2022)

Deep learning for drug repurposing: methods, databases, and applications. - Xiaoqin Pan; Xuan Lin; Dongsheng Cao 001; Xiangxiang Zeng; Philip S. Yu; Lifang He 001; Ruth Nussinov; Feixiong Cheng (CoRR, 2022)

Markov State Models and Molecular Dynamics Simulations Reveal the Conformational Transition of the Intrinsically Disordered Hypervariable Region of K-Ras4B to the Ordered Conformation. - Hao Zhang; Duan Ni; Jigang Fan; Minyu Li; Jian Zhang 037; Chen Hua; Ruth Nussinov; Shaoyong Lu (J. Chem. Inf. Model., 2022)

HMI-PRED 2.0: a biologist-oriented web application for prediction of host-microbe protein-protein interaction by interface mimicry. - Hansaim Lim; Chung-Jung Tsai; Ozlem Keskin; Ruth Nussinov; Attila Gürsoy (Bioinform., 2022)

Accurate prediction of molecular properties and drug targets using a self-supervised image representation learning framework. - Xiangxiang Zeng; Hongxin Xiang; Linhui Yu; Jianmin Wang 016; Kenli Li 001; Ruth Nussinov; Feixiong Cheng (Nat. Mac. Intell., 2022)

Allosteric Activation of RhoA Complexed with p115-RhoGEF Deciphered by Conformational Dynamics. - Nurit Haspel; Hyunbum Jang; Ruth Nussinov (J. Chem. Inf. Model., 2024)

Capturing Autoinhibited PDK1 Reveals the Linker's Regulatory Role, Informing Innovative Inhibitor Design. - Liang Xu; Hyunbum Jang; Ruth Nussinov (J. Chem. Inf. Model., 2024)

mTOR Variants Activation Discovers PI3K-like Cryptic Pocket, Expanding Allosteric, Mutant-Selective Inhibitor Designs. - Yonglan Liu; Wengang Zhang; Hyunbum Jang; Ruth Nussinov (J. Chem. Inf. Model., 2025)

Prediction of Protein Three-dimensional Structures via a Hardware-Executable Quantum Computing Framework. - Yuqi Zhang; Yuxin Yang; William Martin 011; Kingsten Lin; Zixu Wang; Cheng-Chang Lu; Weiwen Jiang; Ruth Nussinov; Joseph Loscalzo; Qiang Guan; Feixiong Cheng (CoRR, 2025)