List of works - Masha Niv

A Flexible Docking Procedure for the Exploration of Peptide Binding Selectivity to Known Structures and Homology Models of PDZ Domains

scientific article published on 01 October 2005

A bioinspired in vitro bioelectronic tongue with human T2R38 receptor for high-specificity detection of N-C=S-containing compounds

scientific article published on 06 February 2019

AMPK-derived peptides reduce blood glucose levels but lead to fat retention in the liver of obese mice.

scientific article

Aldehyde recognition and discrimination by mammalian odorant receptors via functional group-specific hydration chemistry

scientific article

Allostery in Its Many Disguises: From Theory to Applications

scientific article published on 07 February 2019

AnchorDock for Blind Flexible Docking of Peptides to Proteins

scientific article published in January 2017

AnchorDock: Blind and Flexible Anchor-Driven Peptide Docking

scientific article published on 23 April 2015

Author Correction: RGS7 is recurrently mutated in melanoma and promotes migration and invasion of human cancer cells

scientific article published on 09 March 2019

Backbone cyclic peptide inhibitors of protein kinase B (PKB/Akt).

scientific article

Biomimetic Sensors for the Senses: Towards Better Understanding of Taste and Odor Sensation

scientific article published on 11 December 2017

Bitter and sweet tasting molecules: It's complicated

scientific article published on 19 April 2018

Bitter or not? BitterPredict, a tool for predicting taste from chemical structure

scientific article published on 21 September 2017

Bitter-Tasting Amino Acids l-Arginine and l-Isoleucine Differentially Regulate Proton Secretion via T2R1 Signaling in Human Parietal Cells in Culture

scientific article published on 04 March 2020

BitterDB: a database of bitter compounds

scientific article

BitterDB: taste ligands and receptors database in 2019

article

Bitterless Guaifenesin Prodrugs - Design, Synthesis, Characterization, In Vitro Kinetics and Bitterness Studies

scientific article published on 02 November 2018

Bitterness prediction in-silico: A step towards better drugs

scientific article published on 28 March 2017

BlockMaster: partitioning protein kinase structures using normal-mode analysis.

scientific article published in July 2009

Characterization of tilapia (Oreochromis niloticus) gonadotropins by modeling and immunoneutralization

scientific article published on 02 June 2014

Comparing Class A GPCRs to bitter taste receptors: Structural motifs, ligand interactions and agonist-to-antagonist ratios.

scientific article

Computational Studies of Smell and Taste Receptors

Computational and experimental analysis of the transmembrane domain 4/5 dimerization interface of the serotonin 5-HT(1A) receptor.

scientific article published on 5 June 2012

Corrigendum: Independent Evolution of Strychnine Recognition by Bitter Taste Receptor Subtypes

scholarly article published in Frontiers in molecular biosciences

Deciphering the Arginine-binding preferences at the substrate-binding groove of Ser/Thr kinases by computational surface mapping

scientific article

Design and synthesis of novel protein kinase R (PKR) inhibitors

scientific article published on August 2016

Detecting thresholds for bitter, umami, and sweet tastants in broiler chicken using a 2-choice test method

scientific article published on 2 March 2017

Dynamics of electronic states and spin-flip for photodissociation of dihalogens in matrices: experiment and semiclassical surface-hopping and quantum model simulations for F2 and ClF in solid Ar.

scientific article

Experimental and computational study of inter- and intra- species specificity of gonadotropins for various gonadotropin receptors

scientific article

Expression and structure/function relationships of human defensin 5.

scientific article

Formation of novel rare-gas-containing molecules by molecular photodissociation in clusters.

scientific article

From Cell to Beak: In-Vitro and In-Vivo Characterization of Chicken Bitter Taste Thresholds.

scientific article

Functions of Opsins in Drosophila Taste

scientific article published on 26 February 2020

GPCR & company: databases and servers for GPCRs and interacting partners.

scientific article published on January 2014

Homology model-assisted elucidation of binding sites in GPCRs.

scientific article published on January 2012

Homology modeling of G-protein-coupled receptors with X-ray structures on the rise

scientific article published on May 2010

Identification of GATC- and CCGG-recognizing Type II REases and their putative specificity-determining positions using Scan2S--a novel motif scan algorithm with optional secondary structure constraints

scientific article published on May 2008

In vitro effects of anthocyanidins on sinonasal epithelial nitric oxide production and bacterial physiology

scientific article published on July 2016

Independent Evolution of Strychnine Recognition by Bitter Taste Receptor Subtypes.

scientific article published on 2 March 2018

Influence of oligomerization on the dynamics of G-protein coupled receptors as assessed by normal mode analysis

scientific article published on May 2008

Ligand binding modes from low resolution GPCR models and mutagenesis: chicken bitter taste receptor as a test-case.

scientific article published on 15 August 2017

Membrane localization is critical for activation of the PICK1 BAR domain

scientific article published on 8 May 2008

Modeling activated states of GPCRs: the rhodopsin template

scientific article

Modeling activated states of GPCRs: the rhodopsin template

Modeling of human prokineticin receptors: interactions with novel small-molecule binders and potential off-target drugs

scientific article

Molecular Dynamics Simulations and Elastic Network Analysis of Protein Kinase B (Akt/PKB) Inactivation

article

Molecular Features Underlying Selectivity in Chicken Bitter Taste Receptors

scientific article published on 31 January 2018

Molecular determinants for the complex binding specificity of the PDZ domain in PICK1

scientific journal article

More than smell - COVID-19 is associated with severe impairment of smell, taste, and chemesthesis

scientific article published on 20 June 2020

More than smell. COVID-19 is associated with severe impairment of smell, taste, and chemesthesis

scientific article published on 08 May 2020

PDZBase: a protein-protein interaction database for PDZ-domains

scientific article

Peptidic modulators of protein-protein interactions: progress and challenges in computational design

scientific article published on July 2009

Perinatal Administration of a Bitter Tastant Influences Gene Expression in Chicken Palate and Duodenum

article

Photodissociation and recombination of F2 molecule in Ar54 cluster: Nonadiabatic molecular dynamics simulations

Photodissociation of HBr adsorbed on the surface and embedded in large Arn clusters

article published in 2000

Photodissociation of HCl adsorbed on the surface of an Ar12 cluster: Nonadiabatic molecular dynamics simulations

scientific article published on 8 June 1999

Photodissociation, electronic relaxation and recombination of HCl in Arn(HCl) clusters Non-adiabatic molecular dynamics simulations

Predicting GPCR promiscuity using binding site features

scientific article published on 27 December 2013

Prevention of insulin resistance and beta-cell loss by abrogating PKCepsilon-induced serine phosphorylation of muscle IRS-1 in Psammomys obesus

scientific article published in October 2008

Probing the Binding Pocket of the Broadly Tuned Human Bitter Taste Receptor TAS2R14 by Chemical Modification of Cognate Agonists

scientific article published on 17 February 2016

Promiscuity and selectivity of bitter molecules and their receptors

scientific article published on 16 April 2015

Protonation States in molecular dynamics simulations of peptide folding and binding

scientific article published on January 2013

RASA2 and NF1; two-negative regulators of Ras with complementary functions in melanoma

scientific article published on 26 November 2018

RGS7 is recurrently mutated in melanoma and promotes migration and invasion of human cancer cells

scientific article published on 12 January 2018

Rational design of agonists for bitter taste receptor TAS2R14: from modeling to bench and back

scientific article published on 24 June 2019

Rational redesign of neutral endopeptidase binding to merlin and moesin proteins.

scientific article published on May 2009

Recent smell loss is the best predictor of COVID-19 among individuals with recent respiratory symptoms

scientific article published on 25 December 2020

Recent smell loss is the best predictor of COVID-19: a preregistered, cross-sectional study

scientific article published on 26 July 2020

Recurrent inactivating RASA2 mutations in melanoma

scientific article published on 26 October 2015

Reengineering the ligand sensitivity of the broadly tuned human bitter taste receptor TAS2R14

scientific article published on 19 July 2018

Scan2S: Increasing the precision of PROSITE pattern motifs using secondary structure constraints

scientific article published on 01 September 2008

Sequence-based design of kinase inhibitors applicable for therapeutics and target identification

scientific article published on 21 October 2003

Sequence-based protein kinase inhibition: applications for drug development.

scientific article published on October 2005

Structural requirements of bitter taste receptor activation

scientific article

Structure-based screening for discovery of sweet compounds

scientific article published on 25 January 2020

Synthesis of a novel macrocyclic library: discovery of an IGF-1R inhibitor

scientific article

The bitter pill: clinical drugs that activate the human bitter taste receptor TAS2R14.

scientific article published on 27 November 2013

The human bitter taste receptor TAS2R10 is tailored to accommodate numerous diverse ligands.

scientific article

The taste of KCl - What a difference a sugar makes

scientific article published on 01 February 2018

The taste of toxicity: A quantitative analysis of bitter and toxic molecules

scientific article

Thioredoxin-mimetic peptides (TXM) reverse auranofin induced apoptosis and restore insulin secretion in insulinoma cells

scientific article published on 14 January 2013

Topology of Type II REases revisited; structural classes and the common conserved core

scientific article

Tracking COVID-19 using taste and smell loss Google searches is not a reliable strategy

scientific article published on 25 November 2020

Ultrafast solvent-induced spin-flip and nonadiabatic coupling: ClF in argon solids.

scientific article published on 15 August 2002

Utility and limitations of Google searches on sensory loss as markers for new COVID-19 cases

scientific article published on 11 May 2020

List of works by Masha Niv

A Flexible Docking Procedure for the Exploration of Peptide Binding Selectivity to Known Structures and Homology Models of PDZ Domains

A bioinspired in vitro bioelectronic tongue with human T2R38 receptor for high-specificity detection of N-C=S-containing compounds

AMPK-derived peptides reduce blood glucose levels but lead to fat retention in the liver of obese mice.

Aldehyde recognition and discrimination by mammalian odorant receptors via functional group-specific hydration chemistry

Allostery in Its Many Disguises: From Theory to Applications

AnchorDock for Blind Flexible Docking of Peptides to Proteins

AnchorDock: Blind and Flexible Anchor-Driven Peptide Docking

Author Correction: RGS7 is recurrently mutated in melanoma and promotes migration and invasion of human cancer cells

Backbone cyclic peptide inhibitors of protein kinase B (PKB/Akt).

Biomimetic Sensors for the Senses: Towards Better Understanding of Taste and Odor Sensation

Bitter and sweet tasting molecules: It's complicated

Bitter or not? BitterPredict, a tool for predicting taste from chemical structure

Bitter-Tasting Amino Acids l-Arginine and l-Isoleucine Differentially Regulate Proton Secretion via T2R1 Signaling in Human Parietal Cells in Culture

BitterDB: a database of bitter compounds

BitterDB: taste ligands and receptors database in 2019

Bitterless Guaifenesin Prodrugs - Design, Synthesis, Characterization, In Vitro Kinetics and Bitterness Studies

Bitterness prediction in-silico: A step towards better drugs

BlockMaster: partitioning protein kinase structures using normal-mode analysis.

Characterization of tilapia (Oreochromis niloticus) gonadotropins by modeling and immunoneutralization

Comparing Class A GPCRs to bitter taste receptors: Structural motifs, ligand interactions and agonist-to-antagonist ratios.

Computational Studies of Smell and Taste Receptors

Computational and experimental analysis of the transmembrane domain 4/5 dimerization interface of the serotonin 5-HT(1A) receptor.

Corrigendum: Independent Evolution of Strychnine Recognition by Bitter Taste Receptor Subtypes

Deciphering the Arginine-binding preferences at the substrate-binding groove of Ser/Thr kinases by computational surface mapping

Design and synthesis of novel protein kinase R (PKR) inhibitors

Detecting thresholds for bitter, umami, and sweet tastants in broiler chicken using a 2-choice test method

Dynamics of electronic states and spin-flip for photodissociation of dihalogens in matrices: experiment and semiclassical surface-hopping and quantum model simulations for F2 and ClF in solid Ar.

Experimental and computational study of inter- and intra- species specificity of gonadotropins for various gonadotropin receptors

Expression and structure/function relationships of human defensin 5.

Formation of novel rare-gas-containing molecules by molecular photodissociation in clusters.

From Cell to Beak: In-Vitro and In-Vivo Characterization of Chicken Bitter Taste Thresholds.

Functions of Opsins in Drosophila Taste

GPCR & company: databases and servers for GPCRs and interacting partners.

Homology model-assisted elucidation of binding sites in GPCRs.

Homology modeling of G-protein-coupled receptors with X-ray structures on the rise

Identification of GATC- and CCGG-recognizing Type II REases and their putative specificity-determining positions using Scan2S--a novel motif scan algorithm with optional secondary structure constraints

In vitro effects of anthocyanidins on sinonasal epithelial nitric oxide production and bacterial physiology

Independent Evolution of Strychnine Recognition by Bitter Taste Receptor Subtypes.

Influence of oligomerization on the dynamics of G-protein coupled receptors as assessed by normal mode analysis

Ligand binding modes from low resolution GPCR models and mutagenesis: chicken bitter taste receptor as a test-case.

Membrane localization is critical for activation of the PICK1 BAR domain

Modeling activated states of GPCRs: the rhodopsin template

Modeling activated states of GPCRs: the rhodopsin template

Modeling of human prokineticin receptors: interactions with novel small-molecule binders and potential off-target drugs

Molecular Dynamics Simulations and Elastic Network Analysis of Protein Kinase B (Akt/PKB) Inactivation

Molecular Features Underlying Selectivity in Chicken Bitter Taste Receptors

Molecular determinants for the complex binding specificity of the PDZ domain in PICK1

More than smell - COVID-19 is associated with severe impairment of smell, taste, and chemesthesis

More than smell. COVID-19 is associated with severe impairment of smell, taste, and chemesthesis

PDZBase: a protein-protein interaction database for PDZ-domains

Peptidic modulators of protein-protein interactions: progress and challenges in computational design

Perinatal Administration of a Bitter Tastant Influences Gene Expression in Chicken Palate and Duodenum

Photodissociation and recombination of F2 molecule in Ar54 cluster: Nonadiabatic molecular dynamics simulations

Photodissociation of HBr adsorbed on the surface and embedded in large Arn clusters

Photodissociation of HCl adsorbed on the surface of an Ar12 cluster: Nonadiabatic molecular dynamics simulations

Photodissociation, electronic relaxation and recombination of HCl in Arn(HCl) clusters Non-adiabatic molecular dynamics simulations

Predicting GPCR promiscuity using binding site features

Prevention of insulin resistance and beta-cell loss by abrogating PKCepsilon-induced serine phosphorylation of muscle IRS-1 in Psammomys obesus

Probing the Binding Pocket of the Broadly Tuned Human Bitter Taste Receptor TAS2R14 by Chemical Modification of Cognate Agonists

Promiscuity and selectivity of bitter molecules and their receptors

Protonation States in molecular dynamics simulations of peptide folding and binding

RASA2 and NF1; two-negative regulators of Ras with complementary functions in melanoma

RGS7 is recurrently mutated in melanoma and promotes migration and invasion of human cancer cells

Rational design of agonists for bitter taste receptor TAS2R14: from modeling to bench and back

Rational redesign of neutral endopeptidase binding to merlin and moesin proteins.

Recent smell loss is the best predictor of COVID-19 among individuals with recent respiratory symptoms

Recent smell loss is the best predictor of COVID-19: a preregistered, cross-sectional study

Recurrent inactivating RASA2 mutations in melanoma

Reengineering the ligand sensitivity of the broadly tuned human bitter taste receptor TAS2R14

Scan2S: Increasing the precision of PROSITE pattern motifs using secondary structure constraints

Sequence-based design of kinase inhibitors applicable for therapeutics and target identification

Sequence-based protein kinase inhibition: applications for drug development.

Structural requirements of bitter taste receptor activation

Structure-based screening for discovery of sweet compounds

Synthesis of a novel macrocyclic library: discovery of an IGF-1R inhibitor

The bitter pill: clinical drugs that activate the human bitter taste receptor TAS2R14.

The human bitter taste receptor TAS2R10 is tailored to accommodate numerous diverse ligands.

The taste of KCl - What a difference a sugar makes

The taste of toxicity: A quantitative analysis of bitter and toxic molecules