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Volume 15

(2025)

Research Article

Genome-Wide Identification and Analysis of Alternative Splicing in Aspergillus niger

Xiangjia Min, Courtney Jones, Burrows Logan, Maria Campean, Bilal Wekhyan, Chetan Dasana, Aaryan Patel, Pasan Mudiyanselage, Kolade Adeyemo, Feng Yu

Computational Molecular Biology, 2025, Vol. 15, No. 1, 1-12

[Abstract] [Provisional Full-Text PDF] [Full-Text HTML]

Volume 14

(2024)

Review and Progress

Integrative Approaches in Computational Genomics: Combining Omics Data to Study Gene Evolution

Hongwei Liu

Computational Molecular Biology, 2024, Vol. 14, No. 5, 220-228

[Abstract] [Provisional Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Systematic Review

Emerging Trends in Systems Biology: Multi-Omics Integration and Beyond

Ning Wang, Guocheng Zhang, Manman Li

Computational Molecular Biology, 2024, Vol. 14, No. 5, 211-219

[Abstract] [Provisional Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Invited Review

Unveiling the Patterns and Impact of New Gene Recruitment in Development and Evolution

Kaiwen Liang

Computational Molecular Biology, 2024, Vol. 14, No. 5, 202-210

[Abstract] [Provisional Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Feature Review

Protein-Protein Interaction Networks in Rice under Drought Stress: Insights from Proteomics and Bioinformatics Analysis

Chunli Wang, Nant Nyein Zar Ni Naing, Cui Zhang, Junjie Li, Qian Zhu, Dongsun Lee, Lijuan Chen

Computational Molecular Biology, 2024, Vol. 14, No. 5, 191-201

[Abstract] [Full-Text PDF] [Full-Text HTML]

Research Perspective

Molecular Interactions in Biological Systems: Technological Applications and Innovations

Liangbing Chen, Xianle Ruan, Xinyi Li, Huanling Fu

Computational Molecular Biology, 2024, Vol. 14, No. 5, 182-190

[Abstract] [Full-Text PDF] [Full-Text HTML]

Review and Progress

Bioinformatics in the Age of Big Data: Leveraging Computational Tools for Biological Discoveries

Xiaoming Liu, Wei Zhang

Computational Molecular Biology, 2024, Vol. 14, No. 4, 173-181

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Research Perspective

Biostatistical Challenges in High-Dimensional Data Analysis: Strategies and Innovations

Jianjun Wang

Computational Molecular Biology, 2024, Vol. 14, No. 4, 163-172

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Review Article

Big Data in Genomics: Overcoming Challenges Through High-Performance Computing

Liting Wang, Haimei Wang

Computational Molecular Biology, 2024, Vol. 14, No. 4, 155-162

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Research Insight

The Evolving Landscape of Genomic Selection: Insights and Innovations in Quantitative Genetics

Xiaojun Li, Shuiji Zhang

Computational Molecular Biology, 2024, Vol. 14, No. 4, 145-154

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Research Insight

Dynamic Modeling in Systems Biology: From Pathway Analysis to Whole-Cell Simulations

Jiayao Zhou, Shudan Yan

Computational Molecular Biology, 2024, Vol. 14, No. 4, 134-144

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Research and Progress

Advances in Biomechanics: Exploring Biophysical Models in Cellular Mechanics

Xicheng Yang, Jie Gao

Computational Molecular Biology, 2024, Vol. 14, No. 3, 125-133

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Feature Review

Exploration of the Role of Computational Chemistry in Modern Drug Discovery

Xaiohua Zhang, Jianhui Li

Computational Molecular Biology, 2024, Vol. 14, No. 3, 115-124

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Research Insight

AI in Biology: Transforming Genomic Research with Machine Learning

Qiang Zhang, Yu Wang

Computational Molecular Biology, 2024, Vol. 14, No. 3, 106-114

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Review Article

Big Data Analytics in Biology: A Systematic Review of Methods for Large-Scale Data Processing

Weipan Wang, Bing Zhang, Manman Li

Computational Molecular Biology, 2024, Vol. 14, No. 3, 97-105

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Editoroal

Embracing AI's Role in Structural Biology While Recognizing Its Limits

Sarah McGrew

Computational Molecular Biology, 2024, Vol. 14, No. 3, 95-96

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Review and Progress

Advances in Causal Inference Methods for Biological Network Analysis

Kaiwen Liang, Jiefu Lin

Computational Molecular Biology, 2024, Vol. 14, No. 2, 84-94

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Review and Progress

The Application and Progress of Deep Learning in Bioinformatics

Haimei Wang

Computational Molecular Biology, 2024, Vol. 14, No. 2, 76-83

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Feature Review

Emerging Trends in Multi-Omics Data Integration: Challenges and Future Directions

Jie Zhang

Computational Molecular Biology, 2024, Vol. 14, No. 2, 64-75

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Research Report

Genome-Wide Prediction and Selection in Plant and Animal Breeding: A Systematic Review of Current Techniques

Xiaoya Zhang, Jianquan Li

Computational Molecular Biology, 2024, Vol. 14, No. 2, 54-63

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Research Report

Modeling Biological Networks: A Systematic Review of Computational Approaches to Network Dynamics

Minghua Li, Guoliang Chen

Computational Molecular Biology, 2024, Vol. 14, No. 2, 45-53

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Review and Progress

Role of Proteomics in Unraveling Bacterial Virulence in Rice

Jianquan Li

Computational Molecular Biology, 2024, Vol. 14, No. 1, 36-44

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Research Article

Network Biology Reveals New Strategies for Understanding the Relationship Between Protein Function and Disease

Jiayao Zhou

Computational Molecular Biology, 2024, Vol. 14, No. 1, 28-35

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Research Report

The Application of Artificial Intelligence in Drug Discovery: Opportunities and Challenges

Wei Wang

Computational Molecular Biology, 2024, Vol. 14, No. 1, 20-27

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Review and Progress

Artificial Intelligence and Drug Design: Future Prospects and Ethical Considerations

Tao Chen

Computational Molecular Biology, 2024, Vol. 14, No. 1, 9-19

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Research Article

Genomic Prediction and its Association with the Development of Dementia disease in the Elderly

Xiaojun Li, Shuiji Zhang

Computational Molecular Biology, 2024, Vol. 14, No. 1, 1-8

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Volume 13

(2023)

Research Article

Comparative Analysis of Alternative Splicing Events in Foliar Transcriptomes of Potato Plants Inoculated with Phytophthora Infestans

Jessica A. Lee, Xiangjia Min

Computational Molecular Biology, 2023, Vol. 13, No. 1,

[Abstract] [Full-Text PDF] [Full-Text HTML]

Identification and Bioinformatics Analysis of TCP Family Genes in Tree Peony

Yanzhao Zhang, Xin Luo, Huiyun Li, Xujia Duan, Yan Zhang, Fanjuan Meng

Computational Molecular Biology, 2023, Vol. 13, No. 2,

[Abstract] [Full-Text PDF] [Full-Text HTML]

Review and Progress

Computational Molecular Biology: Interdisciplinary Technological Integration and New Advances

Jessi White, Garen Lee

Computational Molecular Biology, 2023, Vol. 13, No. 3,

[Abstract] [Full-Text PDF] [Full-Text HTML]

Volume 12

(2022)

Research Article

Genome-wide Identification and Expression Analyses of PAL Genes in Different Color Radish

Biao Lai, Chunfan Chen, Zehui Tang, Jing Xiao, Qi Wang, Fabo Chen, Lina Du

Computational Molecular Biology, 2022, Vol. 12, No. 1,

[Abstract] [Full-Text PDF] [Full-Text HTML]

Research Report

Characterization and Expression Profiles of Galaetinol Synthase and Raffinose Synthase in Rubber Tree

Jilai Lu, Zhiyong Wang, Xiangyu Long, Yongjun Fang, Mingxu Zhou, Jianghua Yang, Yunxia Qin

Computational Molecular Biology, 2022, Vol. 12, No. 2,

[Abstract] [Full-Text PDF] [Full-Text HTML]

Research Article

Cloning and Expression Analysis of Phytoene Desaturase (PDS) Gene from Mango (Mangifera indica L.)

Kaili Yu, Zhichang Zhao, Aiping Gao, Ruixiong Luo, Jianfeng Huang, Mengyun Zhang, Maofu Li

Computational Molecular Biology, 2022, Vol. 12, No. 4,

[Abstract] [Full-Text PDF] [Full-Text HTML]

Research Article

Identification and Expression Characteristic Analysis of CML Gene Family of Melon

Luo Lan, Si Xiuyang, Sun Lei, Gao Peng, Li Yong Yong, Wang Xuezheng

Computational Molecular Biology, 2022, Vol. 12, No. 5,

[Abstract] [Full-Text PDF] [Full-Text HTML]

Volume 11

(2021)

Volume 10

(2020)

Volume 9

(2019)

Volume 8

(2018)

Research Article

A Survey of Alternative Splicing in Allotetraploid Cotton (Gossypium hirsutum L.)

Xiang Jia Min

Computational Molecular Biology, 2018, Vol. 8, No. 1,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Volume 7

(2017)

Research Article

Comprehensive Cataloging and Analysis of Alternative Splicing in Maize

X.J. Min

Computational Molecular Biology, 2017, Vol. 7, No. 1,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Volume 6

(2016)

Research Article

NFkB pathway and inhibition: an overview

Ria Biswas, Angshuman Bagchi

Computational Molecular Biology, 2016, Vol. 6, No. 1,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Research Article

Whole transcriptome cerebral cortex gene analysis in Alzheimerâ€™s diseases

S. Pooja, Anitha P. Muttagi, Seema J. Patel, H. Gurumurthy, Prashantha Nagaraja

Computational Molecular Biology, 2016, Vol. 6, No. 2,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Research Article

ProtSecKB: The Protist Secretome and Subcellular Proteome Knowledgebase

Brian Powell, Vamshi Amerishetty, John Meinken, Geneva Knott, Feng Yu, Chester Cooper, Xiang Jia Min

Computational Molecular Biology, 2016, Vol. 6, No. 4,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Research Report

Applications of Machine Learning: Cutting Edge Technology in HIV Diagnosis, Treatment and Further Research

Anubha Dubey

Computational Molecular Biology, 2016, Vol. 6, No. 3,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Volume 6

(2016)

Volume 5

(2015)

The research progression of correlation between long non-coding RNA and breast cancer

Jian Song, Rongguo Li, Yue Zhao, Si Liu, Yujuan Kang, Dongwei Zhang

Computational Molecular Biology, 2015, Vol. 5, No. 2,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Comparative Study of Cellular Tumor Antigen p53 Protein of Fishes and Analysis of its Protein Interaction Network using Computational Approach

Suchitra Kumari, Kiran D. Rasal, Jitendra K. Sundaray, Samiran Nandi, P. Jayasankar

Computational Molecular Biology, 2015, Vol. 5, No. 3,

[Abstract] [Full-Text PDF] [Full-Text HTML]

Changes of Molecular, Cellular and Biological Activities According to microRNA-mRNA Interactions in Ovarian Cancer

Senol DOGAN, Kurtovic -Kozaric A.

Computational Molecular Biology, 2015, Vol. 5, No. 4,

[Abstract] [Full-Text PDF] [Full-Text HTML]

Meta analysis of gene expression data of multiple cancer types to predict biomarkers and drug targets

Shashank K.S, Mamatha H.R, Prashantha C.N

Computational Molecular Biology, 2015, Vol. 5, No. 5,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Research Report

Comparative study of Codon usage pattern and compositional distribution between whole genome and virulence gene set of Vibrio cholerae N16961

Sushanta Deb, Surajit Basak

Computational Molecular Biology, 2015, Vol. 5, No. 6,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Volume 4

(2014)

PlantSecKB: the Plant Secretome and Subcellular Proteome KnowledgeBase

Gengkon Lum, John Meinken, Jessica Orr, Stephanie Frazier, Xiang Min

Computational Molecular Biology, 2014, Vol. 4, No. 1,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

GC2 Biology Dictates Gene Expressivity in Camellia sinensis

Supriyo Chakraborty, Prosenjit Paul

Computational Molecular Biology, 2014, Vol. 4, No. 2,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Association Rules for Diagnosis of Hiv-Aids

Anubha Dubey

Computational Molecular Biology, 2014, Vol. 4, No. 3,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

In Silico Proteomic Functional Re-annotation of Escherichia coli K-12 using Dynamic Biological Data Fusion Strategy

Ramesh Gopal, Subazini Thankaswamy Kosalai, Rajadurai Chinnasamy Perumal, Palani Kannan Kandavel

Computational Molecular Biology, 2014, Vol. 4, No. 4,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Long Non-coding RNAs: key players in brain and central nervous system development

Jie Lv, Hui Liu, Hongbo Liu, Qiong Wu, Yan Zhang

Computational Molecular Biology, 2014, Vol. 4, No. 5,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Phylogeny in Few Species of Leguminosae Family Based on matK Sequence

Sagar Patel, Dipti B. Shah

Computational Molecular Biology, 2014, Vol. 4, No. 6,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

FunSecKB2: a fungal protein subcellular location knowledgebase

John Meinken, David K. Asch, Kofi A. Neizer-Ashun, Guang-Hwa Chang, Chester R.Cooper JR, Xiang Jia Min

Computational Molecular Biology, 2014, Vol. 4, No. 7,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Comparative study of five Legume species based on De Novo Sequence Assembly and Annotation

Sagar S. Patel, Dipti B. Shah, Hetalkumar J. Panchal

Computational Molecular Biology, 2014, Vol. 4, No. 9,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

In-silico molecular analysis of rabies virus across regions

Musa Azara S.I., Yakubu A

Computational Molecular Biology, 2014, Vol. 4, No. 8,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Genomic and functional characterization of histone H3 lysine 4 methylation co-localized marks

Jie Lv, Hongbo Liu, Hui Liu, Qiong Wu, Yan Zhang

Computational Molecular Biology, 2014, Vol. 4, No. 10,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Gujarat State Leguminosae Family Database (GLDB): Bioinformatics Database of Leguminosae Family present in Gujarat state of INDIA

Sagar S. Patel, Dipti B. Shah, Hetalkumar J. Panchal

Computational Molecular Biology, 2014, Vol. 4, No. 11,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Designing and Validation of Primers for High grain number for use in Molecular Breeding in rice

Pranati Swain, Lambodar Behera

Computational Molecular Biology, 2014, Vol. 4, No. 12,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

In-silico analysis predicting the best model for photosystemIID2 Protein of Spinaciaolearacea using multiple templates

Pranati Swain

Computational Molecular Biology, 2014, Vol. 4, No. 13,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

An in-silico analysis showing the interaction of FAD ligand with cytokinin dehydrogenase enzyme and with its domain part in rice

Pranati Swain, Lambodar Behera

Computational Molecular Biology, 2014, Vol. 4, No. 15,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Comparative structural analysis of cytokinin dehydrogenase enzymes of O.sativa, A. thaliana and Zea mays leading to predict the best enzyme

Pranati Swain, Lambodar Behera

Computational Molecular Biology, 2014, Vol. 4, No. 14,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Volume 3

(2013)

Structural Analysis of the Mode of Interactions of SoxB Protein with SoxYZ Complex from Allochromatium vinosum in the Global Sulfur Oxidation Cycle

Sujay Ray, Angshuman Bagchi

Computational Molecular Biology, 2013, Vol. 3, No. 1,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Identification of the Bona fide Differentially Methylated Gene Markers among Cancers

Hongbo Liu, Zhe Li, Jing Ding, Jie Liu, Yan Zhang

Computational Molecular Biology, 2013, Vol. 3, No. 2,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Identification of A Novel phaC1 Gene from Pseudomonas putida KT2442

Jamshid Raheb, Saeed Saadat, Fatemeh Nazari

Computational Molecular Biology, 2013, Vol. 3, No. 3,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Predicting Long Non-coding RNAs Based on Genomic Sequence Information

Jie Lv, Hongbo Liu, Hui Liu, Qiong Wu, Yan Zhang

Computational Molecular Biology, 2013, Vol. 3, No. 4,

[Abstract] [Full-Text PDF] [Full-Text HTML]

Volume 2

(2012)

High-Throughput Computational Approaches to Analyzing Histone Modification Next-Generation Sequencing Data

Jie Lv, Hongbo Liu, Qiong Wu, Yan Zhang

Computational Molecular Biology, 2012, Vol. 2, No. 2,

[Abstract] [Full-Text PDF] [Full-Text HTML]

Computational Prediction of Protein Subcellular Locations in Eukaryotes: an Experience Report

John Meinken, Jack Min

Computational Molecular Biology, 2012, Vol. 2, No. 1,

[Abstract] [Full-Text PDF] [Full-Text HTML]

Volume 1

(2011)

Jing Wang, Liwei Zhang, Chunyan Liu, Yuhua Li, Qingshan Chen, Guohua Hu

Computational Molecular Biology, 2011, Vol. 1, No. 2,

[Abstract] [Full-Text PDF] [Full-Text HTML]

CDRH: Database of Complex Disease-Related Haplotype in Human

Ruijie Zhang, Yongshuai Jiang, Hongchao Lv, Xuehong Zhang, Peng Sun, Yan Zhang, Mingming Zhang, Jin Li, Zhenwei Shang, Xia Li

Computational Molecular Biology, 2011, Vol. 1, No. 3,

[Abstract] [Full-Text PDF] [Full-Flipping PDF] [Full-Text HTML]

Computational Molecular Biology: an Integration of Experimental Molecular and Genome Biology with Computational Technology

Yan Zhang, Jack Min

Computational Molecular Biology, 2011, Vol. 1, No. 1,

[Abstract] [Full-Text PDF] [Full-Text HTML]