I am looking for any information about the use of Fortran in the medical field, in vaccine research, or in epidemic studies. Any pointers to code or mentions about usage in research papers or even general news will be useful.
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Amber molecular dynamics is one example popular Fortran software for drug interaction and discovery simulations.
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It is used indirectly to the degree that medical researchers use R. R currently cannot build without Fortran.
Source: Will R Work on Apple Silicon? (link)
Much regulatory work uses Stata, but I don’t know much at all about it.
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Fortran has long been one of the primary languages of statistical computing, although nowadays many algorithms are implemented in C, C++, Matlab, Python/Numpy, and R. Statistics includes biostatistics, and much of the biostatistics software of the MD Anderson Cancer Center is in Fortran.
Time series methods have been applied to EEG, for example in Multi-channel EEG analyses via dynamic regression models with time-varying lag/lead structure. Two of the authors of that paper also wrote the book Time Series: Modeling, Computation, and Inference, which analyses EEG time series using a Fortran code for time-varying vector autoregression. The latest version of the software is in Matlab. All important Matlab software should be translated to modern Fortran and sped up 
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Googling “epidemic fortran” gets some relevant links:
The epirecipes project has Fortran code that a user can run in a Jupyter notebook for a SIR model from the book Modeling Infectious Diseases in Humans and Animals. Other programs from the book, in C++, Python, Fortran, and Matlab, are here.
The 2020 paper A Simulation of a COVID-19 Epidemic Based on a Deterministic SEIR Model refers to a Fortran code for simulated annealing.
The 2020 paper Simulation of the COVID-19 epidemic on the social network of Slovenia: Estimating the intrinsic forecast uncertainty has downloadable Python code calling Fortran 90 using F2PY.
Delay differential equations have applications in biology, and there are Fortran codes for them.
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A naïve approach to identify Fortran in medicine would be to access journals relevant to the topics mentioned, and to hope «Fortran» is indexed as such, as a keyword. Without background in medicine, I tested New England Journal of Medicine, and The Lancet (on occasion mentioned in the radio’s science corner). A consultation of a research librarian and dedicated literature database likely is more suitable for such a query.
Given the age of Fortran, and chemometrics, one one hand, and the rise of «chemical mapping / imaging» of a sample to record spatial composition of e.g., a tissue, by means of MS and IR / Raman spectroscopy in histology (an open access review), on the other, I speculate the pixelwise processing (each pixel is about a whole spectrum) benefits from Fortran when it comes to cluster analysis / principal component analysis (a commercial example). This however suggests to complement abovementioned search by a consultation of databases about chemistry / physics / optics (e.g., this open access publication about cellular stress on SPIE).
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A lot of molecular simulation for drug discovery is done using density-functional theory (DFT) [1], and most of the widely-used DFT codes are written in fortran. See in particular ONETEP and other O(N) codes for the simulation of large molecules.
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There are lists like here to appreciate Fortran’s contribution. On occasion, the extent sometimes is quantified, e.g., for NWChem:
(loc. cit.)
W.E. Schiesser and coworkers have written books with Fortran code
Computational Transport Phenomena: Numerical Methods for the Solution of Transport Problems
The Numerical Method of Lines: Integration of Partial Differential Equations
Ordinary and Partial Differential Equation Routines in C, C++, Fortran, Java, Maple, and MATLAB
His book Time Delay ODE/PDE Models: Applications in Biomedical Science and Engineering uses R. Maybe the R packages call Fortran code.
I don’t know what language his ODE/DAE/PDE software is written in, but many of the applications are in medicine:
Magnetic resonance imaging (MRI) guidance of radio frequency tumor ablation
Distributed compartment models for positron emission tomography (PET) receptor studies
Response of muscle and lung tissue to transient heating in vivo
Analysis of atherosclerotic lesion development
Intracellular calcium wave propagation linked to cardiac arrhythmia
Antigen-antibody reactions on chemically treated silicon wafers
Arterial endothelium permeability
Density equalizing maps of neural data
Thrombus dynamics
Acid-mediated tumor growth
Retinal oxygen transport
Rapid oxygen purge in a medical oxygen concentrator
Hemodialyzer dynamics
Epidermal wound healing
Drug distribution from a polymer matrix
Quantum efficiency of pigment molecules in cone photoreceptors
Method of lines applied to the discrete ordinates method for radiative heat transfer
Propagation of laser beams in polymer particles
Laser light propagation through Bose-Einstein condensates
Stimulated Brillouin scattering dynamics
Identification of free radical polymerization parameters
Dynamic analysis of polymer blown-film extrusion
Polymer swelling in fiber optic sensors
Drying of granular food particles
Droplet drying with moving boundary
Simulation of cement production units
Radial dispersion in Fischer-Tropsch reactors
Performance of membrane reactors
Methane combustion with CO2 separation
Diffusion and reaction of H2 in multilayer containment vessels
Spatial probabilistic model for steel corrosion in reinforced concrete structures
Reaction-diffusion in metallic systems
Oxygen grain-boundary transport
Dynamics of cryogenics refrigeration plants
Cryogenic (liquid helium) cooling of superconducting magnets
Heat transfer dynamics in rapid, thermal swing adsorption
Hydrotreating and naphtha reforming
Dynamics of a monolith loop reactor system
Methylation kinetics of Hg in aquatic sediments
Settling of particles in drilling fluids
Soil hydrology
Soil internal drainage and short furrow redistribution
Eutrophication and pH calculation
Dynamics of a karst aquifier
Coastal dynamics
Shoreline sediment evolution
River pollutant transport
Release control of toxic nanomaterials to the environment
Sinkhole dynamics
Solute transport in karst conduits
Adaptive grid solution of electrochemical kinetic equations
Evaluation of effective diffusivities for porous catalysts
Physics of organic light emitting diodes (LEDs)
Plasma turbulence
Integro partial differential equations in plasma physics
Josephson electrodynamics
Solution of 1-D Euler equations for cavitations and one-fluid two-phase flow problems
Longitudinal vibrations of Rayleigh-Bishop and Rayleigh-Love rods
Analysis of black hole singularities in general relativity
Relativistic wavepackets in chaotic quantum cosmology
Sun’s magnetic field
Fokker-Planck equations for time evolution of velocity probabilty distributions
Collapse of the World Trade Center towers
Black-Scholes options pricing models (e.g., for convertible bonds)
3D Convolusional Filtering
This program reads 3-Dimensional scalar fields out of STRUCTURED-POINTS *.vtk files and filters them according to specific convolutional matrices/Kernels.
It’s tested with up to 160 Processors (4 nodes) on Vulcan. Turnaround time of roughly 200 Seconds while reading/computing/writing to storage on 18.5E09 Voxels of kind INTEGER2.
About:
HLRS - NUM - Convolusional Filtering of Computed Tomography scans. Intended to get a clear separation between bone marrow and cancellous bone for subsequent binarization and calculations.
This program, under current development by Johannes Gebert, uses Fortran 2003 (at least) and MPI.
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