Computer simulations using ever-increasing computing power and machine learning techniques allow advanced molecular modelling, molecular dynamics simulations and studies of intermolecular interactions. However, due to the complexity of biological systems and chemical processes at the molecular level, their accurate representation using classical computer models and techniques has faced a number of significant limitations for many years. A new and promising direction for the development of computational science and its potential applications in biochemistry is quantum computing and its integration with classical high-performance supercomputing systems. This article responds to the growing interest in the use of available quantum computers in exemplary applications. In this paper, we aim to provide an overview of the basic notions involved in the development of quantum algorithms and simulations related to issues at the interface of quantum chemistry and biochemistry. In addition, the article introduces the basic principles of performing simulations using the state-of-the-art quantum computers in the era of Noisy Intermediate-Scale Quantum (NISQ). Experimental results of the classical-quantum algorithm Variational Quantum Eigensolver (VQE) for example molecules H2 and CH+ are also presented. Despite the many shortcomings of currently available quantum computers, the analysed VQE algorithm proved to be effective in approximating the ground state of molecules using a minimal functional basis.
Computer simulations using ever-increasing computing power and machine learning techniques allow advanced molecular modelling, molecular dynamics simulations and studies of intermolecular interactions. However, due to the complexity of biological systems and chemical processes at the molecular level, their accurate representation using classical computer models and techniques has faced a number of significant limitations for many years. A new and promising direction for the development of computational science and its potential applications in biochemistry is quantum computing and its integration with classical high-performance supercomputing systems. This article responds to the growing interest in the use of available quantum computers in exemplary applications. In this paper, we aim to provide an overview of the basic notions involved in the development of quantum algorithms and simulations related to issues at the interface of quantum chemistry and biochemistry. In addition, the article introduces the basic principles of performing simulations using the state-of-the-art quantum computers in the era of Noisy Intermediate-Scale Quantum (NISQ). Experimental results of the classical-quantum algorithm Variational Quantum Eigensolver (VQE) for example molecules H2 and CH+ are also presented. Despite the many shortcomings of currently available quantum computers, the analysed VQE algorithm proved to be effective in approximating the ground state of molecules using a minimal functional basis.
Quantum computing is emerging as a transformative approach in bioinformatics and quantum chemistry, addressing fundamental computational limitations of classical methods in molecular science. Many biological and chemical systems are inherently governed by quantum mechanics, making accurate simulation with classical algorithms computationally expensive or infeasible. This review examines how quantum computing, particularly in the Noisy Intermediate-Scale Quantum (NISQ) era, is advancing molecular modeling, reaction dynamics, and bioinformatics applications. Key quantum algorithms, including the Variational Quantum Eigensolver (VQE) and Quantum Phase Estimation (QPE), demonstrate increasing capability in approximating molecular energies and simulating quantum systems. In parallel, applications in bioinformatics—such as protein folding, genomic search, and combinatorial optimization—highlight the potential of quantum computing to address complex biological problems. Quantum machine learning further extends these capabilities by integrating quantum algorithms with data-driven modeling. However, current progress is constrained by NISQ-era limitations, including noise, limited qubit counts, and scalability challenges. These constraints highlight the need for hybrid quantum–classical approaches and improved error mitigation strategies. Overall, quantum computing represents a complementary computational paradigm that can enhance classical methods in bioinformatics and chemistry. Continued advances in quantum algorithms, hardware, and hybrid modeling frameworks are expected to expand its role in molecular science and computational biology.
However, accurately simulating molecular interactions constitutes the central, but open question of computer chemistry. This is a core task for efforts in drug development, catalyst design, and materials science. Most classical algorithms perform well on smaller systems, but incumbent exponential scaling penalties are unavoidable as models grow larger and more complex to describe quantum behaviour. An entirely new paradigm for this problem is now introduced by quantum computing: superposition and entanglement resources natively encode quantum states and model their electronic structures. The paper will thus take a high-level view of the leading quantum algorithms, with particular regard to those called Variational Quantum Eigensolver (VQE) and Quantum Phase Estimation (QPE), while evaluating their performance on today's Noisy Intermediate Scale Quantum (NISQ) devices. Next will follow discussions on algorithm design and current hardware capabilities, before which open challenges on scalability, error mitigation, and algorithm design will be outlined. Emphasis shall also be placed on the ethics and accessibility issues as well as the timelines with which quantum computing might gain a practical advantage. Linking together the recent advances and limitations, this paper posits how quantum computer implementation may change the face of chemical modelling and scientific discovery.
Quantum chemistry plays a crucial role in advancing fundamental understanding of chemical processes and driving innovation in energy, medicine, and materials science. Recent progress in quantum computing has opened new possibilities for molecular simulations that are beyond the practical limits of classical approaches. Academic studies have demonstrated hybrid Density Functional Theory (DFT) and Variational Quantum Eigensolver (VQE) benchmarks on small transition-metal systems, such as iron porphyrin and heme analogues, using current noisy intermediate-scale quantum (NISQ) hardware. Although full-scale simulations of complex biological systems such as the complete Cytochrome P450 (CYP450) active site remain a long-term goal due to limitations in qubit numbers, coherence times, and error correction, the underlying methodologies are now well established. At present, quantum chemistry applications in drug discovery remain largely experimental, and widespread practical medical impact is expected to require further technological advances over the next 5–10 years. Nevertheless, quantum software and algorithm development for chemical applications is progressing rapidly. This perspective summarizes recent advances in quantum computing algorithms, hardware, and software relevant to chemistry, and critically discusses the remaining challenges and opportunities for applying quantum computing to chemical problems, with particular emphasis on drug discovery and development.
The advancements in classical computational components such as CPUs and GPUs have had a reverberating impact on the democratization of computational power available, with the field of computational chemistry reaping significant benefits from the propulsion of the limits of systems studied. The accurate prediction of chemical properties and reaction dynamics through computational simulation is now a centerpiece of modern chemical research, significantly accelerating discoveries research areas of materials science and drug development, as well as industrially relevant processes such as the emission of aldehydes from soft foams, flame retardants and pyrolysis and the carbonylation of epoxides. These achievements of computational chemistry still are overshadowed in the face of fundamental bottlenecks where classical methods remain constrained by the exponential scaling when treating large and/or strongly correlated quantum many-body systems. This innate computational complexity often constitutes chemically accurate calculations based on first principles impractical, or plain impossible, for systems beyond modest sizes. Quantum computing offers a potential pathway around these limitations, originally formally formulated by David Deutsch as a tool for simulating quantum systems, with the first quantum algorithms indicating speed-ups compared to classical counterparts arising from Peter Shor and Lov Grover for the prime factorization of an integer number and unstructured search respectively. Relying on fundamental theorems by Claude Shannon, it has been demonstrated that through the use of error-correcting codes fault-tolerant quantum computers are able to safeguard information against noise and decoherence, strongly indicating towards exponential speedups in solving central computational chemistry problems, such as determining ground state energies or reaction pathways of chemical systems. Substantial strides in experimental quantum computing over the past decade, including proof-of-principle demonstrations of quantum error correction, mean to bring full-scale fault-tolerant quantum computing within the grasp of humanity. The breakthroughs needed to attain scalable, error-corrected quantum computation with capabilities exceeding those of classical methods in real-world scenarios is likely still some years away. While striving to address the engineering challenges standing in the way of achieving fault tolerant quantum computing, substantial effort has been focused toward developing and benchmarking hybrid algorithms tailored for the Noisy Intermediate- Scale Quantum (NISQ) devices, available now to researchers. These hybrid quantum-classical algorithms, with the most notable being the Variational Quantum Eigensolver (VQE), allow the probing of quantum computing’s utility in computational chemistry even in the face of significant hardware noise and limited coherence times. The work presented in this thesis introduces several key additions the VQE framework, geared especially towards to NISQ hardware, where the mindful use of available resources is imperative. First, the implementation of the Conjugate Model Search optimizer is described, an optimization method that integrates simple models that are surrogate to the original function, combined with conjugate gradient optimization to navigate effectively parameter landscapes typical of variational algorithms, prone to noise. Second, this thesis contains the proposal and extensive study of a hyperparameter tuning procedure employing genetic algorithms, allowing for comprehensive simulation benchmarks that augment the robustness and efficiency of VQE implementations with respect to convergence time through real wall-time models of quantum processors. Continuing, a bridge is presented between quantum simulation and quantum chemistry, through qubit-to-fermion mappings of existing quantum gates, further enabling the direct and accurate modeling of chemical systems on trapped atom quantum hardware with the added arsenal provided by techniques designed for qubit architectures. Additionally, experimental data contained in this thesis include detailed benchmarking data collected from state-of-the-art trapped ion quantum processors available at the Johannes Gutenberg Universität Mainz, demonstrating the actual viability and performance of various methodologies for extracting results. Lastly, the state of VQE is examined, as it served as a springboard for a plethora of advancements in the development of quantum computing hardware, as well as the direction the field of simulation of computational quantum chemistry via quantum devices is headed towards in the coming years.
Quantum chemistry models atoms and molecules using quantum mechanics, with the electronic structure problem at its core. This problem, which determines the energy and properties of electrons in a molecule, is exponentially hard to solve exactly on classical computers. To approximate solutions, effective models introduce layers of simplifications. However, these approximations can fail for strongly correlated systems, necessitating alternative approaches. Quantum computers, capable of processing quantum information natively, offer a promising path to simulate molecular systems beyond classical reach, with potential applications in catalysis, materials science, and photochemistry. Despite rapid advancements in quantum hardware, practical quantum computations remain challenging due to limited resources. This thesis optimizes quantum resource usage in computational chemistry, introducing novel embedding techniques and exploring applications beyond ground-state energies. Chapter 1 establishes the foundation by reviewing quantum chemistry methods, from Hartree-Fock and Density Functional Theory (DFT) to active space approaches. It also provides an introduction to quantum computing for chemistry, focusing on near-term algorithms. The following chapters present novel methods aimed at reducing quantum resource requirements and tackling problems classical methods struggle with. Chapter 2 introduces a technique to reduce the λ-norm of the electronic structure Hamiltonian, a key measure of quantum resource demand. By transforming molecular orbitals, this method enhances sampling efficiency in Noisy Intermediate-Scale Quantum (NISQ) algorithms and reduces runtime in Fault-Tolerant Quantum Computing (FTQC). Localized orbitals outperform canonical ones, and an orbital-optimization scheme is proposed to minimize the λ-norm. Benchmarks on hydrogen chains, FeMoco, and Ruthenium complexes demonstrate its effectiveness. Chapter 3 presents the FragPT2 framework for simulating large systems with multiple interacting fragments. This method embeds each fragment in the mean field of others and applies multi-reference perturbation theory to capture inter-fragment correlations such as dispersion and charge transfer efficiently. The approach reduces computational overhead and enables scalable simulations, as shown in applications to \ce{N2} dimers, aromatic dimers, and butadiene. Chapter 4 focuses on photochemical systems, where multiple electronic states must be treated equally. The state-averaged orbital-optimized variational quantum eigensolver (SAOOVQE) is extended with analytical energy gradients and non-adiabatic couplings, enabling geometry optimizations and simulations of non-adiabatic dynamics on quantum hardware. This is demonstrated by locating the conical intersection in formaldimine, highlighting SAOOVQE’s potential for studying photoisomerization in biomolecules. Building on this, Chapter 5 develops a quantum algorithm to detect conical intersections, where the Born-Oppenheimer approximation breaks down. These intersections are characterized by a discrete Berry phase (0 or π), representing their topological nature. The algorithm extracts this phase as a single bit of information, ensuring resilience to noise. Analytical proof and numerical validation using a toy molecular model illustrate its effectiveness for studying light-perception biochemistry and related photochemical processes. Finally, Chapter 6 explores machine learning density functionals trained on noisy quantum data. While DFT is computationally efficient, its accuracy depends on approximated exchange-correlation functionals. This work proposes a neural network-based approach to learn the exact functional from quantum data, showing that training on noisy outputs from NISQ devices can mitigate sampling errors. Applications to the Fermi-Hubbard model and other systems demonstrate its potential to generalize and provide accurate results under noise. This thesis advances quantum computational chemistry by optimizing quantum resource usage, developing new embedding strategies, and expanding the scope of quantum simulations beyond ground-state properties. These contributions pave the way for practical quantum algorithms that could revolutionize molecular simulations in the near future.
One of the first practical applications of quantum computers is expected to be molecular modelling. Performing this task would profoundly affect areas such as chemistry, materials science and drug synthesis. Modelling of molecules, which are classically intractable, can be achieved with just over 30 qubits, whereas state of the art quantum computers already have more than 50 qubits. The Variational Quantum Eigensolver (VQE) algorithm and VQE based protocols, are promising candidates to enable this task on emerging Noisy Intermediate-Scale Quantum (NISQ) computers. These protocols require short quantum circuits and short coherence times, and are particularly resilient to quantum errors. Nevertheless, there is still a significant gap between the accuracy and the coherence times of current NISQ computers, and the hardware requirements of VQE protocols to simulate practically interesting molecules. In this thesis, I present my contribution to narrowing this gap by developing VQE protocols for molecular modelling that are less demanding on quantum hardware. The VQE relies on the Rayleigh-Ritz variational principle to estimate the eigenvalues of a Hamiltonian operator, by minimizing its expectation value with respect to a trial quantum state, prepared by an ansatz. A major challenge for the practical realisation of VQE protocols on NISQ computers is to construct an ansatz that: (1) can accurately approximate the eigenstates of the Hamiltonian; (2) is easy to optimize; and (3) can be implemented by a shallow circuit, within the capabilities of a NISQ computer. The most widely used, unitary coupled cluster (UCC), type of ans\"atze mathematically correspond to a product of unitary evolutions of fermionic excitation operators. Owing to their fermionic structure, UCC ans\"atze preserve the symmetries of electronic wavefunctions, and thus are accurate and easy to optimize. Nevertheless, UCC ans\"atze are implemented by high depth circuits, which severely limit the size of the molecules that can be reliably simulated on NISQ computers. In this thesis, I begin by constructing efficient quantum circuits to perform evolutions of fermionic excitation operators. The circuits are optimized in the number of two-qubit entangling gates, which are the current bottleneck of NISQ computers. Compared to the standard circuits used to implement evolutions of fermionic excitation operators, the circuits derived in this thesis reduce the number of two-qubit entangling gates by more than 70% on average. As an intermediate result, I also derive efficient circuits to perform evolutions of qubit excitation operators (excitation operators that account for qubit, rather than fermionic commutation relations). Even with the fermionic-excitation-evolution circuits derived here, UCC ans\"atze still require very long circuits, with a particularly large number of two-qubit entangling gates. In this thesis, I consider the use of alternative VQE ans\"atze, based on evolutions of qubit excitation operators. Due to not accounting for fermionic anticommutation, evolutions of qubit excitation operators can be performed by circuits that require asymptotically fewer two-qubit entangling gates. Furthermore, qubit excitation operators preserve many of the physical properties of fermionic excitation operators. Performing a number of classical numerical VQE simulations for small molecules, I show that qubit-excitation-based ans\"atze can approximate molecular electronic wavefunctions almost as accurately as fermionic-excitation-based ans\"atze. Hence, I argue that evolutions of qubit excitation operators are more suitable to construct molecular ans\"atze than evolutions of fermionic excitation operators, especially in the era of NISQ computers. Motivated by the advantage of qubit-excitation-based ans\"atze, I introduce the qubit-excitation-based adaptive variational quantum eigensolver (QEB-ADAPT-VQE). The QEB-ADAPT-VQE belongs to a family of ADAPT-VQE protocols for molecular modelling that grow a problem-tailored ansatz by iteratively appending unitary operators sampled from a predefined finite-size pool of operators. The operator at each iteration is sampled based on an ansatz-growing strategy, which aims to achieve the lowest estimate for the Hamiltonian expectation value at each iteration. In this way, ADAPT-VQE protocols construct shallow-circuit, few-parameter ans\"atze tailored specifically to the molecular systems of interest. In the case of the QEB-ADAPT-VQE, the operator pool is defined by a set of evolutions of single and double qubit excitation operators. I benchmark the performance of the QEB-ADAPT-VQE, by performing classical numerical simulations. I demonstrate that it can construct ans\"atze that are several orders of magnitude more accurate, and require significantly shallower circuits, than standard UCC ans\"atze. I also compare the QEB-ADAPT-VQE against the original fermionic-ADAPT-VQE, which utilizes a pool of fermionic excitation evolutions, and the qubit-ADAPT-VQE, which utilizes a pool of Pauli-string evolutions. I demonstrate that, in terms of circuit efficiency and convergence speed, the QEB-ADAPT-VQE systematically outperforms the qubit-ADAPT-VQE, which to my knowledge was the previous most circuit-efficient, scalable VQE protocol for molecular modeling. The QEB-ADAPT-VQE protocol, therefore represents a significant improvement in the field of VQE protocols for molecular modelling and brings us closer to achieving practical quantum advantage. Lastly, I outline a modified version of the QEB-ADAPT-VQE, the excited-QEB-ADAPT-VQE, designed to estimate energies of excited molecular states. The excited-QEB-ADAPT-VQE is more robust to initial simulation conditions, at the expense of increased computational complexity.