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2024

Development of a Simple Cost Effective Oxygenation System for In Vivo Solution State NMR in 10 mm NMR Tubes

In vivo NMR is evolving into an important tool to understand biological processes and environmental responses. Current approaches use flow systems to sustain the organisms with oxygenated water and food (e.g., algae) inside the NMR.

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Molecular Melodies: Unraveling the Hidden Harmonies of NMR Spectroscopy

This work explores the evolution of auditory analysis in NMR spectroscopy, tracing its journey from a supplementary tool to visual methods such as oscilloscopes, to a technique sidelined due to technological advancements

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2023

Direct deduction of chemical class from NMR spectra

This paper presents a proof-of-concept method for classifying chemical compounds directly from NMR data without performing structure elucidation.

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2022

Efficiently driving protein-based fragment screening and lead discovery using two-dimensional NMR

Fragment-based drug discovery (FBDD) and validation of small molecule binders using NMR spectroscopy is an established and widely used method in the early stages of drug discovery. Starting from a library of small compounds, ligand- or protein-observed NMR methods are employed to detect binders, typically weak, that become the starting points for structure-activity relationships (SAR) by NMR.

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A CASE (Computer-Assisted Structure Elucidation) for Bench-Top NMR Systems in the Undergraduate Laboratory for De Novo Structure Determination: How Well Can We Do?

The recent popularity of benchtop (BT) NMR systems has prompted its applications in undergraduate laboratories around the world. Owing to their low maintenance cost, due to the lack of a superconducting magnetic core, and simple operation, these BT NMR systems can fulfill many of the learning objectives outlined in the undergraduate organic chemistry curricula.

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Mestrelab peer reviewed papers

Simplifying spectroscopic supplementary data collection

One of the interesting initiatives discussed during the IUPAC General Assembly a few weeks ago in Sao Paulo was the renewed push for more efficient and simpler ways of submitting supplementary spectroscopic data.

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2020

Mestrelab peer reviewed papers

A KNIME Workflow for Automated Structure Verification

Adequate characterization of chemical entities made for biological screening in the drug discovery context is critical. Incorrectly characterized structures lead to mistakes in the interpretation of structure–activity relationships and confuse an already multidimensional optimization problem.

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Mestrelab peer reviewed papers

NMR signal processing, prediction and structure verification with Machine Learning techniques

Machine learning (ML) methods have been present in the field of NMR since decades, but it has experienced a tremendous growth in the last few years, especially thanks to the emergence of deep learning (DL) techniques taking advantage of the increased amounts of data and available computer power.

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2019

Mestrelab peer reviewed papers

A Contribution to the Harmonization of Non-targeted NMR Methods for Data-Driven Food Authenticity Assessment

Spectroscopic non-targeted methods are gaining ever-growing importance in quality control and authenticity assessment of food products because of their strong potential for identification of specific features of the products by data-driven classifiers.

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Mestrelab peer reviewed papers

Workflows Allowing Creation of Journal Article Supporting Information and Findable, Accessible, Interoperable, and Reusable (FAIR)-Enabled Publication of Spectroscopic Data

There is an increasing focus on the part of academic institutions, funding agencies, and publishers, if not researchers themselves, on preservation and sharing of research data. Motivations for sharing include research integrity, replicability, and reuse.

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2018

Mestrelab peer reviewed papers

Applications of the Whittaker smoother in NMR spectroscopy

The Whittaker smoother, a special case of penalized least square, is a multipurpose algorithm that has proven to be very useful in many scientific fields, including image processing, chromatography, and optical spectroscopy.

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Mestrelab peer reviewed papers

NMReDATA, a standard to report the NMR assignment and parameters of organic compounds

Even though NMR has found countless applications in the field of small molecule characterization, there is no standard file format available for the NMR data relevant to structure characterization of small molecules.

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2017

Mestrelab peer reviewed papers

LocMAP: A New Localization Method for the Parametric Processing of High Resolution NMR Data

High resolution NMR spectroscopy offers a large number of data points that enable close peaks to be resolved. Data processing algorithms, however, have not yet been able to capitalize on this offering to achieve the highest permissible resolution.

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Mestrelab peer reviewed papers

Enabling fast Pseudo-2D NMR Acquisition for Broadband Homonuclear Decoupling – The EXACT NMR approach

Pseudo-2D NMR provides a means of acquiring broadband homonuclear decoupled spectra useful for structural characterization of complex molecules.

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Mestrelab peer reviewed papers

Computerized Optimization of Liquid Chromatography Separations

Computer-assisted methods development (CAMD) of LC (liquid chromatography) separations comprises the strategies, methodologies, and software that can be used for more effective and efficient development of separations needed in the analytical chromatography laboratory.

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Mestrelab peer reviewed papers

1J CH NMR Profile: Identification of Key Structural Features and Functionalities by Visual Observation and Direct Measurement of One-Bond Proton-Carbon Coupling Constants

A user-friendly NMR interface for the visual and accurate determination of experimental one-bond proton-carbon coupling constants (1JCH) in small molecules is presented.

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Mestrelab peer reviewed papers

A robust, general automatic phase correction algorithm for high-resolution NMR data

The trends towards rapid NMR data acquisition, automated NMR spectrum analysis, and data processing and analysis by more naïve users combine to place a higher burden on data processing software to automatically process these data.

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Mestrelab peer reviewed papers

Autonomous driving in NMR

The automatic analysis of NMR data has been a much-desired endeavour for the last six decades, as it is the case with any other analytical technique.

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2016

Mestrelab peer reviewed papers

Validation of NMR fingerprinting methods: effects of processing on measure reproducibility and laboratory performance assessment (ebook)

Since the first experiments on the detection of nuclear resonance signals, NMR spectroscopy has been successfully used as quantitative technique applied to several kind of matrixes.

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Mestrelab peer reviewed papers

Assessing Heterogeneity of Osteolytic Lesions in Multiple Myeloma by 1H HR-MAS NMR Metabolomics

Multiple myeloma (MM) is a malignancy of plasma cells characterized by multifocal osteolytic bone lesions. Macroscopic and genetic heterogeneity has been documented within MM lesions. Understanding the bases of such heterogeneity may unveil relevant features of MM pathobiology.

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Mestrelab peer reviewed papers

Improving the Performance of High-Precision qNMR Measurements by a Double Integration Procedure in Practical Cases

Quantitative 1H NMR (qNMR) is a widely applied technique for compound concentration and purity determinations.

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Mestrelab peer reviewed papers

EXtended ACquisition Time (EXACT) NMR – A Case for ′Burst′ Non-Uniform Sampling

A strong case exists for the introduction of burst non-uniform sampling (NUS) in the direct dimension of NMR spectroscopy experiments.

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Mestrelab peer reviewed papers

Exploring the use of Generalized Indirect Covariance to reconstruct pure shift NMR spectra: Current Pros and Cons

The current Pros and Cons of a processing protocol to generate pure chemical shift NMR spectra using Generalized Indirect Covariance are presented and discussed.

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Mestrelab peer reviewed papers

Access to experimentally infeasible spectra by pure-shift NMR covariance

Covariance processing is a versatile processing tool to generate synthetic NMR spectral representations without the need to acquire time-consuming experimental datasets.

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Mestrelab peer reviewed papers

Proton magnetic resonance spectroscopy in oncology: the fingerprints of cancer?

Abnormal metabolism is a key tumor hallmark. Proton magnetic resonance spectroscopy (1H-MRS) allows measurement of metabolite concentration that can be utilized to characterize tumor metabolic changes. 1H-MRS measurements of specific metabolites have been implemented in the clinic.

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Mestrelab peer reviewed papers

Fast and Efficient Fragment-Based Lead Generation by Fully Automated Processing and Analysis of Ligand-Observed NMR Binding Data

NMR binding assays are routinely applied in hit finding and validation during early stages of drug discovery, particularly for fragment-based lead generation. To this end, compound libraries are screened by ligand-observed NMR experiments such as STD, T1ρ, and CPMG to identify molecules interacting with a target.

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2015

Mestrelab peer reviewed papers

Resolution-enhanced 2D NMR of complex mixtures by non-uniform sampling

The authors describe methods to quickly acquire NUS-assisted 2D spectra that are suitable for qNMR.

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Mestrelab peer reviewed papers

NMR data visualization, processing, and analysis on mobile devices

Carlos Cobas has written this article about NMR analysis on mobiles devices in collaboration with Isaac Iglesias and Felipe Seoane.

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Mestrelab peer reviewed papers

Application of 19 F time-domain NMR to measure content in fluorine-containing drug products

It is necessary to show that the active content in the dosage form of drugs is within a certain narrow range of the label claim.

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Mestrelab peer reviewed papers

An Integrated Approach to Structure Verification Using Automated Procedures

Spectroscopic methods – of which nuclear magnetic resonance (NMR) is one of the most vital players – have almost entirely replaced those old “wet chemistry”-based approaches and the art has become a science.

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2014

Mestrelab peer reviewed papers

NMR Data Evaluation: Review of Covariance Applications

Covariance NMR has attracted considerable interest in recent years and new applications of this technique aimed at paving the way forward to structure elucidation are appearing frequently in the scientific literature.

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2013

Automatic assignment of 1H-NMR spectra of small molecules

Title: Automatic assignment of 1H-NMR spectra of small molecules Authors: Cobas, C., Seoane, F., Vaz, E., Bernstein, M. A., Dominguez, S., Pérez, M. and Sýkora, S. […]
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Optimization and automation of quantitative NMR data extraction

Title: Optimization and automation of quantitative NMR data extraction Authors: Mike Bernstein, Sýkora S., Chen Peng, Agustín Barba, Carlos Cobas Date: 12/04/2013 Reference: Anal. Chem. 2013, 85, 5778–5786. DOI: […]
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2011

A NMR reverse diffusion filter for the simplification of spectra of complex mixtures and the study of drug receptor interactions

Title: A NMR reverse diffusion filter for the simplification of spectra of complex mixtures and the study of drug receptor interactions Authors: M. Vega-Vázquez, J. C. […]
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2010

A new approach to improving automated analysis of proton NMR spectra through Global Spectral Deconvolution (GSD)

Title: A new approach to improving automated analysis of proton NMR spectra through Global Spectral Deconvolution (GSD) Authors: Carlos Cobas, Felipe Seoane, Santiago Domínguez, Stan Sykora […]
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Fast multidimensional localized parallel NMR spectroscopy for the analysis of samples

Title: Fast multidimensional localized parallel NMR spectroscopy for the analysis of samples Authors: M. Vega-Vazquez , J. C. Cobas, M. Martin-Pastor Date: 2010/07/26 Reference: 48(10):749-52  Magn. […]
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2009

Automatic phase correction of 2D NMR spectra by a whitening method

Title: Automatic phase correction of 2D NMR spectra by a whitening method Authors: G. Balacco, J. C. Cobas Date: 2009/02/03 Reference: Magn. Reson. Chem. 47 (4), […]
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2008

Wavelet-based filtering applied to the diagonal suppression of 2D NMR data sets

Title: Wavelet-based filtering applied to the diagonal suppression of 2D NMR data sets Authors: J. C. Cobas Date: 2008/02/20 Reference: Stan’s Library, Vol II, 2008 DOI: […]
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2007

Compression of high resolution 1D and 2D NMR data sets using JPEG2000

Title: Compression of high resolution 1D and 2D NMR data sets using JPEG2000 Authors: J. C. Cobas, P. G. Tahoces, I. Iglesias Fernánez Date: 2007/11/04 Reference: […]
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2006

A new general-purpose fully automatic baseline-correction procedure for 1D & 2D NMR data

Title: A new general-purpose fully automatic baseline-correction procedure for 1D & 2D NMR data Authors: J. C. Cobas, M. A. Bernstein, M. M. Pastor, P. G. […]
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2005

New Applications, Processing Methods and Pulse Sequences using Diffusion NMR

Title: New Applications, Processing Methods and Pulse Sequences using Diffusion NMR Authors: J.C. Cobas, P. Groves, M. Martín-Pastor, A. De Capua Date: 2005/08/04 Reference: Curr. Anal. […]
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A two-stage approach to automatic determination of 1H NMR coupling constants

Title: A two-stage approach to automatic determination of 1H NMR coupling constants Authors: J.C. Cobas, V. Constantino-Castillo, M. Martín-Pastor, F. del Río-Portilla Date: 2005/08/04 Reference: Magn. […]
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2004

A homodecoupled diffusion experiment for the analysis of complex mixtures by NMR

Title: A homodecoupled diffusion experiment for the analysis of complex mixtures by NMR Authors: J.C. Cobas, M. Martín-Pastor Date: 2004/08/04 Reference: J. Magn. Reson, 2004, 171, […]
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A Graphical Tool for the Prediction of Vicinal Proton-Proton 3JHH Coupling Constants

Title: A Graphical Tool for the Prediction of Vicinal Proton-Proton 3JHH Coupling Constants Authors: Navarro-Vazquez, A.; Cobas, J. C.; Sardina, F. J.; Casanueva, J.; Diez, E. […]
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Wavelet-based ultra-high compression of multidimensional NMR data sets

Title: Wavelet-based ultra-high compression of multidimensional NMR data sets Authors: J. C. Cobas, P. G. Tahoces, M. Martin-Pastor, M. Penedo, F. J. Sardina Date: 2004/08/04 Reference: […]
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2003

Basic Concepts of Endianness

Title: Basic Concepts of Endianness Authors: J. Carlos Cobas Date: 2003/08/04 Reference: The Code Project, 2003 DOI: http://www.codeproject.com/kb/cpp/endianness.aspx   Download Publication
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Nuclear magnetic resonance data processing. MestRe-C: A software package for desktop computers

Title: Nuclear magnetic resonance data processing. MestRe-C: A software package for desktop computers Authors: J. Carlos. Cobas, F. Javier. Sardina Date: 2003/08/04 Reference: Concept. Magn. Reson., […]
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