Bioinformatics, Medical Informatics, Computational Biology and Biological Network Analysis Survey & Review Papers

  1. Bioinformatics software for genomic: a systematic review on GitHub
  2. Graph- and rule-based learning algorithms: a comprehensive review of their applications for cancer type classification and prognosis using genomic data
  3. Developments in Algorithms for Sequence Alignment: A Review
  4. A Review on Planted (l, d) Motif Discovery Algorithms for Medical Diagnose
  5. Blockchain technology in the pharmaceutical industry: a systematic review
  6. A Review of Cell-Based Computational Modeling in Cancer Biology
  7. Computational healthcare: Present and future perspectives (Review)
  8. A review of protein–protein interaction network alignment: From pathway comparison to global alignment
  9. Advances in clinical genetics and genomics (Review paper)
  10. The benefits and threats of blockchain technology in healthcare: A scoping review
  11. Computational Methods for Identifying Similar Diseases
  12. Review on the Development and Applications of Medicinal Plant Genomes
  13. Application of Graph Theory for Identifying Connectivity Patterns in Human Brain Networks: A Systematic Review
  14. A Review of Cancer Genetics and Genomics Studies in Africa
  15. Blockchain in healthcare and health sciences (Review)
  16. Blockchain for genomics and healthcare: a literature review, current status, classification and open issues
  17. Good review about Clinical metagenomics
  18. A Review of 2020’s Top Translational Bioinformatics Publications
  19. Deep learning in mental health outcome research: a scoping review
  20.  A review of the role of public health informatics in healthcare
  21. A Review on Potentials of Artificial Intelligence Approaches to Forecasting COVID-19 Spreading
  22. Visual Analytics of Genomic and Cancer Data: A Systematic Review
  23. Network Medicine in the Age of Biomedical Big Data (Review)
  24. Machine Learning in Drug Discovery: A Review
  25. A review on application of nanoinformatics and bioinformatics in nanomedicine
  26. Recent advances in biomedical literature mining
  27. A review of bioinformatic pipeline frameworks
  28. Review of machine learning methods for RNA secondary structure prediction
  29. Probiotics has no bad effect on any diseases (Twenty years review of probiotic meta-analyses articles: Effects on disease prevention and treatment)
  30. Disease networks and their contribution to disease understanding (Review)
  31. Network approaches to systems biology analysis of complex disease
  32. Computer-aided biomarker discovery for precision medicine: data resources, models and applications
  33. Recent advances in clinical genetics and genomics (Review)
  34. Artificial intelligence applications in psychoradiology
  35. Precision medicine new opportunity for complex diseases
  36. Systems biology in disease modeling and control, analysis and perspectives
  37. The potential of mRNA vaccines for a wide range of diseases
  38. Bioinformatics Approaches for Determining the Functional Impact of Repetitive Elements on Non-coding RNAs
  39. Network based Approach to Drug Discovery: A Mini Review
  40. Network modeling methods for precision medicine
  41.  Good review of Gene Regulatory Network Inference techniques and tools
  42. Review of Gene Set Analysis for genomics data
  43. COVID-19 drug repurposing: A review of computational screening methods, clinical trials, and protein interaction assays
  44. Systematic review of computational methods for predicting long noncoding RNAs
  45. Computational network biology: Data, models, and applications
  46. Machine learning Solutions for Osteoporosis – a Review
  47. Incorporating Machine Learning into Established Bioinformatics Frameworks
  48. Exploring the computational methods for protein-ligand binding site prediction 
  49. A Review of Biomedical Datasets Relating to Drug Discovery
  50. A Survey of Brain Tumor Segmentation and Classification Algorithms
  51. Machine learning methods for prediction of cancer driver genes: a survey paper
  52. Computational methods for cancer driver discovery: A survey
  53. Survey of miRNA-miRNA cooperative regulation principles across cancer types
  54. Exploration of databases and methods supporting drug repurposing: a comprehensive survey
  55.  Machine learning approaches and databases for prediction of drug–target interaction: a survey paper 
  56. Status of Bioinformatics Education in South Asia: Past and Present
  57. Biological Computation and Computational Biology: Survey, Challenges, and Discussion
  58. A survey on literature based discovery approaches in biomedical domain
  59. A survey of best practices for RNA-seq data analysis
  60. A survey on deep learning in DNA/RNA motif mining
  61. Web-based drug repurposing tools: a survey
  62. Complex Brain Network Analysis and Its Applications to Brain Disorders: A Survey
  63. A survey of web resources and tools for the study of Traditional Chinese Medicine (TCM) network pharmacology
  64. A Survey of Current Resources to Study lncRNA-protein Interactions
  65. Bipartite graphs in systems biology and medicine: a survey of methods and applications
  66. A new survey research of computational methods for drug-target interaction (DTI) prediction and related datasets
  67. A Survey of Computational Methods and Resources
    for Metabolomics and Multi-Omics Integration
  68. Main challenges researchers face in analyzing data, and the solutions
  69. Survey of Machine Learning Techniques in Drug Discovery
  70. A comprehensive survey of bioinformatics tools and databases in Plant RNA editing
  71. A breif survey about Evolution of biosequence search algorithms
  72. A sample systematic review and a bioinformatics analysis
  73. A survey fo Bioinformatics application to biotechnology field
  74. Predictions, Pivots, and a Pandemic: a Review of 2020's Top Translational Bioinformatics Publications
  75. Long walk to genomics: History and current approaches to genome sequencing and assembly
  76. Network science of biological systems at different scales: A review
  77. Network-based methods for predicting essential genes or proteins: a survey
  78. A survey of gene regulatory networks modelling methods: from differential equations, to Boolean and qualitative bioinspired models
  79. Research on the Computational Prediction of Essential Genes
  80. A Systematic Review of Artificial Intelligence Techniques in Cancer Prediction and Diagnosis
  81. Computational Methods for Identifying Similar Diseases
  82. A review on the application of bioinformatics tools in food microbiome studies
  83. Complex Brain Network Analysis and Its Applications to Brain Disorders: A Survey
  84. Biomedical data and computational models for drug repositioning: a comprehensive review
  85. Grasping frequent subgraph mining for bioinformatics applications
  86. Microarray cancer feature selection: Review, challenges and research directions
  87. A review of the application of deep learning in the detection of Alzheimer's disease
  88. Application of Machine Learning for Drug–Target Interaction Prediction
  89. Deep Learning in Cancer Diagnosis and Prognosis Prediction: A Minireview on Challenges, Recent Trends, and Future Directions
  90. COVID-19: A systematic review and update on prevention, diagnosis, and treatment​
  91. Using Machine Learning for Pharmacovigilance: A Systematic Review
  92. A State-of-the-Art Survey on Deep Learning Methods and Applications in Bioinformatics
  93. A survey of circular RNAs in complex diseases: databases, tools and computational methods
  94. The past, present and future of genomics and bioinformatics: A survey of Brazilian scientists
  95. A brief review of protein–ligand interaction prediction
  96. A guide to machine learning for biologists
  97. A practical guide to interpreting and generating bottom-up proteomics data visualizations
  98. A survey and evaluation of Web-based tools/databases for variant analysis of TCGA data
  99. Breast cancer detection using artificial intelligence techniques: A systematic literature review
  100. Bioinformatics Research on Drug Sensitivity Prediction
  101. A review of computational drug repositioning: strategies, approaches, opportunities, challenges, and directions
  102. Computational medicine: quantitative modeling of complex diseases
  103. Challenges and Limitations of Biological Network Analysis
  104. A guide to performing systematic literature reviews in bioinformatics
  105. A paradigm shift in medicine: A comprehensive review of network-based approaches
  106. Data mining in clinical big data: the frequently used databases, steps, and methodological models
  107. Personal Health Records: A Systematic Literature Review
  108. Feature selection methods and genomic big data: a systematic review
  109. Impact of computational approaches in the fight against COVID-19: an AI guided review of 17000 studies 
  110. Interpretation of differential gene expression results of RNA-seq data: review and integration
  111. Computational drug repurposing based on electronic health records: a scoping review
  112. ​​​​​​A comprehensive review of artificial intelligence and network based approaches to drug repurposing in Covid-19
  113. Recent advances in network-based methods for disease gene prediction
  114. A Literature Review of Network Models in Neuroscience
  115. Cancer Diagnosis Using Deep Learning: A Bibliographic Review 
  116. A review of methods and databases for metagenomic classification and assembly
  117. Advanced machine-learning techniques in drug discovery 
  118. Blockchain for Genomics: A Systematic Literature Review
  119. Deep learning-based clustering approaches for bioinformatics
  120. Evolution of Sequence-based Bioinformatics Tools for Protein-protein Interaction Prediction
  121. Determining Protein–Protein Interaction Using Support Vector Machine: A Review
  122. Changing Trends in Computational Drug Repositioning
  123. A review of deep learning applications in human genomics using next-generation sequencing data
  124. Navigating the pitfalls of applying machine learning in genomics
  125. A Review of Mathematical and Computational Methods in Cancer Dynamics
  126. Clinical applications of artificial intelligence and machine learning in cancer diagnosis: looking into the future
  127. Gastric cancer and genomics: review of literature
  128.  A survey of machine learning techniques for prediction of drug side effects
  129. A Survey on Computational Methods for Investigation on ncRNA-Disease Association
  130. A systematic survey of centrality measures for protein-protein interaction networks
  131. Network analysis with biological data of cancer patients: A scoping review
  132. A comprehensive survey of the approaches for pathway analysis using multi-omics data integration
  133. Comparison Study of Computational Prediction Tools for Drug-Target Binding Affinities
  134. Post-translational modifications in proteins: resources, tools and prediction methods
  135. A review of biomedical datasets relating to drug discovery: a knowledge graph perspective
  136. Biomedical data, computational methods and tools for evaluating disease–disease associations
  137. Application of artificial intelligence in drug repositioning
  138. Artificial Intelligence, Machine Learning and Deep Learning in Ion Channel Bioinformatics
  139. Machine learning and statistical methods for clustering single-cell RNA-sequencing data
  140. Network biology: Recent advances and challenges
  141. Machine learning solutions for predicting protein–protein interactions
  142. Association of COVID-19 with diabetes: a systematic review and meta-analysis
  143. Bioinformatics for Marine Products: An Overview of Resources, Bottlenecks, and Perspectives
  144. Machine Learning Applied to Diagnosis of Human Diseases: A Systematic Review
  145. Application of Artificial Intelligence Techniques to Predict Risk of Recurrence of Breast Cancer: A Systematic Review
  146. Computational models for predicting drug responses in cancer research
  147. Machine learning for integrating data in biology and medicine: Principles, practice, and opportunities
  148. Classification of breast cancer using microarray gene expression data: A survey
  149. Gene Set Analysis: Challenges, Opportunities, and Future Research
  150. Interpretation of differential gene expression results of RNA-seq data: review and integration
  151. Machine Learning in Medicine
  152. Artificial Intelligence in Healthcare: Review and Prediction Case Studies
  153. A bibliometric analysis of natural language processing in medical research
  154. Computational Methods for Prediction of Human Protein-Phenotype Associations: A Review
  155. A Survey of Gene Prioritization Tools for Mendelian and Complex Human Diseases
  156. Graph representation learning in bioinformatics: trends, methods and applications
  157. Mining Proteome Research Reports: A Bird’s Eye View
  158. A review of deep learning applications in human genomics using next-generation sequencing data
  159. Artificial intelligence in cancer target identification and drug discovery
  160. A Survey on Methods for Predicting Polyadenylation Sites from DNA Sequences, Bulk RNA-seq, and Single-cell RNA-seq
  161. A comprehensive survey on computational learning methods for analysis of gene expression data
  162. Computational methods to predict protein aggregation
  163. Computational Methods for Prediction of Human Protein-Phenotype Associations: A Review
  164. A Review of Fifteen Years Developing Computational Tools to Study Protein Aggregation
  165. Review on the Application of Machine Learning Algorithms in the Sequence Data Mining of DNA
  166. A Brief Review on Deep Learning Applications in Genomic Studies
  167. Fifteen Years of Gene Set Analysis for High-Throughput Genomic Data: A Review of Statistical Approaches and Future Challenges
  168.  Machine Learning Methods for Cancer Classification Using Gene Expression Data: A Review

  169. Computational drug discovery and repurposing for the treatment of COVID-19: A systematic review

  170. Mapping miRNA Research in Schizophrenia: A Scientometric Review

  171. A review of data mining in bioinformatics​​​​​​​

  172. Machine-Learning-Based Disease Diagnosis: A Comprehensive Review ​​​​​​​

  173. Artificial intelligence in medical diagnostics: A review from a South African context

  174. Deep learning: new computational modelling techniques for genomics

  175. ChatGPT Utility in Healthcare Education, Research, and Practice: Systematic Review on the Promising Perspectives and Valid Concerns

  176. Disease Prediction Using Graph Machine Learning Based on Electronic Health Data: A Review of Approaches and Trends ​​​​​​​

  177. Protein–RNA interaction prediction with deep learning: structure matters

  178. Biological Sequence Classification: A Review on Data and General Methods​​​​​​​

  179. Best practices for single-cell analysis across modalities

  180. Computational methods for drug combination prediction: systematic review​​​​​​​

  181.  A review of deep learning applications for genomic selection​​​​​​​

  182. Systematic review of computational methods for drug combination prediction​​​​​​​

  183. A review on detection of prostate cancer using deep learning techniques

  184. Risk prediction models for breast cancer: a systematic review​​​​​​​

  185. Machine learning as a new horizon for colorectal cancer risk prediction? A systematic review​​​​​​​

  186. Temporal networks in biology and medicine: a survey on models, algorithms, and tools

  187. Applications of Transformer-based Language Models in Bioinformatics: A Survey

  188. A survey on adverse drug reaction studies

  189. A Survey of Machine Learning Approaches Applied to Gene Expression Analysis for Cancer Prediction​​​​​​​

  190. A Survey of Biological Data in a Big Data Perspective

  191. A survey of the most recent Python packages for use in biology​​​​​​​

  192. Protein–RNA interaction prediction with deep learning: structure matters

  193. A survey of machine learning-based methods for COVID-19 medical image analysis

  194. Comprehensive Survey of Recent Drug Discovery Using Deep Learning

  195. Drug Design Assisted by Computers: New Tools in Bioinformatics

  196. A survey of computational methods and databases for lncRNA-miRNA interaction prediction

  197. A comprehensive review and conceptual framework for cloud computing adoption in bioinformatics

  198. Using machine learning approaches for multi-omics data analysis: A review

  199. Review on Databases and Bioinformatic Approaches on Pharmacogenomics of Adverse Drug Reactions

  200. Multi-omic and multi-view clustering algorithms: review and cancer benchmark

  201. Deep Learning Based Methods for Molecular Similarity Searching: A Systematic Review

  202. Machine Learning in Colorectal Cancer Risk Prediction from Routinely Collected Data: A Review

  203. A review on the application of bioinformatics tools in food microbiome studies

  204. Unsupervised Multi-Omics Data Integration Methods: A Comprehensive Review

  205. Deep learning in drug discovery: an integrative review and future challenges

  206. Protein–protein interaction prediction with deep learning: A comprehensive review

  207. Disease Prediction Using Graph Machine Learning Based on Electronic Health Data: A Review of Approaches and Trends

  208. A comprehensive review and conceptual framework for cloud computing adoption in bioinformatics

  209. Applications of cutting-edge artificial intelligence technologies in biomedical literature and document mining

  210. Role of miRNA in Gastric Cancer Risk, Onset, and Progression: A Systematic Review

  211. Multimodal machine learning in precision health: A scoping review

  212. A Review of Machine Learning Methods and Tools for Integrated Multi-Omics Analyses in Oncology

  213. Current Artificial Intelligence (AI) Techniques, Challenges, and Approaches in Controlling and Fighting COVID-19: A Review

  214. A systematic review of computational approaches to understand cancer biology for informed drug repurposing

  215. Visibility graph analysis for brain: scoping review

  216. Applications and Techniques of Machine Learning in Cancer Classification: A Systematic Review

  217. Machine-Learning-Based Prediction Modelling in Primary Care: State-of-the-Art Review

  218. Machine learning approach to gene essentiality prediction: a review

  219. Future of Artificial Intelligence Applications in Cancer Care: A Global Cross-Sectional Survey of Researchers

  220.