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  2. Early prediction of hospital mortality is crucial for ICU patients with sepsis. This study aimed to develop a novel blending machine learning (ML) model for hospital mortality prediction in ICU patients with s...

    Authors: Zhixuan Zeng, Shuo Yao, Jianfei Zheng and Xun Gong
    Citation: BioData Mining 2021 14:40
    Content type: Research Published on:

  4. Although many patients receive good prognoses with standard therapy, 30–50% of diffuse large B-cell lymphoma (DLBCL) cases may relapse after treatment. Statistical or computational intelligent models are power...

    Authors: Shuanglong Fan, Zhiqiang Zhao, Yanbo Zhang, Hongmei Yu, Chuchu Zheng, Xueqian Huang, Zhenhuan Yang, Meng Xing, Qing Lu and Yanhong Luo
    Citation: BioData Mining 2021 14:38
    Content type: Research Published on:

  5. The last decade has seen a major increase in the availability of genomic data. This includes expert-curated databases that describe the biological activity of genes, as well as high-throughput assays that meas...

    Authors: Haripriya Harikumar, Thomas P. Quinn, Santu Rana, Sunil Gupta and Svetha Venkatesh
    Citation: BioData Mining 2021 14:37
    Content type: Research Published on:

  6. GenoVault is a cloud-based repository for handling Next Generation Sequencing (NGS) data. It is developed using OpenStack-based private cloud with various services like keystone for authentication, cinder for ...

    Authors: Sankalp Jain, Amit Saxena, Suprit Hesarur, Kirti Bhadhadhara, Neeraj Bharti, Sunitha Manjari Kasibhatla, Uddhavesh Sonavane and Rajendra Joshi
    Citation: BioData Mining 2021 14:36
    Content type: Software article Published on:

  7. Calcific aortic valve stenosis (CAVS) is a fatal disease and there is no pharmacological treatment to prevent the progression of CAVS. This study aims to identify genes potentially implicated with CAVS in pati...

    Authors: Erika Cantor, Rodrigo Salas, Harvey Rosas and Sandra Guauque-Olarte
    Citation: BioData Mining 2021 14:35
    Content type: Research Published on:

  9. Chronic Obstructive Pulmonary Disease (COPD) is one of the top 10 causes of death worldwide, representing a major public health problem. Researchers have been looking for new technologies and methods for patie...

    Authors: Juliana Alves Pegoraro, Sophie Lavault, Nicolas Wattiez, Thomas Similowski, Jésus Gonzalez-Bermejo and Etienne Birmelé
    Citation: BioData Mining 2021 14:33
    Content type: Research Published on:

  10. Genomic studies increasingly integrate expression quantitative trait loci (eQTL) information into their analysis pipelines, but few tools exist for the visualization of colocalization between eQTL and GWAS res...

    Authors: Theodore G. Drivas, Anastasia Lucas and Marylyn D. Ritchie
    Citation: BioData Mining 2021 14:32
    Content type: Software article Published on:

  11. High-throughput sequencing enables the analysis of the composition of numerous biological systems, such as microbial communities. The identification of dependencies within these systems requires the analysis a...

    Authors: Sebastian Racedo, Ivan Portnoy, Jorge I. Vélez, Homero San-Juan-Vergara, Marco Sanjuan and Eduardo Zurek
    Citation: BioData Mining 2021 14:31
    Content type: Methodology Published on:

  13. Hepatocellular carcinoma (HCC) is a disease with a high incidence and a poor prognosis. Growing amounts of evidence have shown that the immune system plays a critical role in the biological processes of HCC su...

    Authors: Qian Yan, Wenjiang Zheng, Boqing Wang, Baoqian Ye, Huiyan Luo, Xinqian Yang, Ping Zhang and Xiongwen Wang
    Citation: BioData Mining 2021 14:29
    Content type: Research Published on:

    The Correction to this article has been published in BioData Mining 2023 16:30

  14. Machine learning approaches for predicting disease risk from high-dimensional whole genome sequence (WGS) data often result in unstable models that can be difficult to interpret, limiting the identification of...

    Authors: Maya Varma, Kelley M. Paskov, Brianna S. Chrisman, Min Woo Sun, Jae-Yoon Jung, Nate T. Stockham, Peter Y. Washington and Dennis P. Wall
    Citation: BioData Mining 2021 14:28
    Content type: Research Published on:

  15. As next-generation sequencing technologies make their way into the clinic, knowledge of their error rates is essential if they are to be used to guide patient care. However, sequencing platforms and variant-ca...

    Authors: Kelley Paskov, Jae-Yoon Jung, Brianna Chrisman, Nate T. Stockham, Peter Washington, Maya Varma, Min Woo Sun and Dennis P. Wall
    Citation: BioData Mining 2021 14:27
    Content type: Research Published on:

  16. As per the 2017 WHO fact sheet, Coronary Artery Disease (CAD) is the primary cause of death in the world, and accounts for 31% of total fatalities. The unprecedented 17.6 million deaths caused by CAD in 2016 u...

    Authors: Seema Singh Saharan, Pankaj Nagar, Kate Townsend Creasy, Eveline O. Stock, James Feng, Mary J. Malloy and John P. Kane
    Citation: BioData Mining 2021 14:26
    Content type: Research Published on:

  17. Longitudinal gene expression analysis and survival modeling have been proved to add valuable biological and clinical knowledge. This study proposes a novel framework to discover gene signatures and patterns in...

    Authors: Cláudia S. Constantino, Alexandra M. Carvalho and Susana Vinga
    Citation: BioData Mining 2021 14:25
    Content type: Methodology Published on:

  18. Aortic dissection (AD) is one of the most catastrophic aortic diseases associated with a high mortality rate. In contrast to the advances in most cardiovascular diseases, both the incidence and in-hospital mor...

    Authors: Peng Qiu, Yixuan Li, Kai Liu, Jinbao Qin, Kaichuang Ye, Tao Chen and Xinwu Lu
    Citation: BioData Mining 2021 14:24
    Content type: Research Published on:

  19. Acute heart failure (AHF) is associated with significant morbidity and mortality. Effective patient risk stratification is essential to guiding hospitalization decisions and the clinical management of AHF. Cli...

    Authors: Ashwath Radhachandran, Anurag Garikipati, Nicole S. Zelin, Emily Pellegrini, Sina Ghandian, Jacob Calvert, Jana Hoffman, Qingqing Mao and Ritankar Das
    Citation: BioData Mining 2021 14:23
    Content type: Research Published on:

  22. The evolutionary dynamics of SARS-CoV-2 have been carefully monitored since the COVID-19 pandemic began in December 2019. However, analysis has focused primarily on single nucleotide polymorphisms and largely ...

    Authors: Brianna Sierra Chrisman, Kelley Paskov, Nate. Stockham, Kevin Tabatabaei, Jae-Yoon Jung, Peter Washington, Maya Varma, Min Woo Sun, Sepideh Maleki and Dennis P. Wall
    Citation: BioData Mining 2021 14:20
    Content type: Research Published on:

  25. For gene-gene interaction analysis, the multifactor dimensionality reduction (MDR) method has been widely employed to reduce multi-levels of gene-gene interactions into high- or low-risk groups using a binary ...

    Authors: Jung Wun Lee and Seungyeoun Lee
    Citation: BioData Mining 2021 14:17
    Content type: Methodology Published on:

  26. In genome-wide association studies the extent and impact of confounding due to population structure have been well recognized. Inadequate handling of such confounding is likely to lead to spurious associations...

    Authors: Fentaw Abegaz, François Van Lishout, Jestinah M. Mahachie John, Kridsadakorn Chiachoompu, Archana Bhardwaj, Diane Duroux, Elena S. Gusareva, Zhi Wei, Hakon Hakonarson and Kristel Van Steen
    Citation: BioData Mining 2021 14:16
    Content type: Methodology Published on:

  29. Evaluating binary classifications is a pivotal task in statistics and machine learning, because it can influence decisions in multiple areas, including for example prognosis or therapies of patients in critica...

    Authors: Davide Chicco, Niklas Tötsch and Giuseppe Jurman
    Citation: BioData Mining 2021 14:13
    Content type: Methodology Published on:

  31. Screening for suicidal ideation in high-risk groups such as U.S. veterans is crucial for early detection and suicide prevention. Currently, screening is based on clinical interviews or self-report measures. Bo...

    Authors: Anas Belouali, Samir Gupta, Vaibhav Sourirajan, Jiawei Yu, Nathaniel Allen, Adil Alaoui, Mary Ann Dutton and Matthew J. Reinhard
    Citation: BioData Mining 2021 14:11
    Content type: Research Published on:

  33. Non-additive interactions among genes are frequently associated with a number of phenotypes, including known complex diseases such as Alzheimer’s, diabetes, and cardiovascular disease. Detecting interactions r...

    Authors: Alena Orlenko and Jason H. Moore
    Citation: BioData Mining 2021 14:9
    Content type: Research Published on:

  37. Here we present a web interface that implements a comprehensive mechanistic model of the SARS-CoV-2 disease map. In this framework, the detailed activity of the human signaling circuits related to the viral in...

    Authors: Kinza Rian, Marina Esteban-Medina, Marta R. Hidalgo, Cankut Çubuk, Matias M. Falco, Carlos Loucera, Devrim Gunyel, Marek Ostaszewski, María Peña-Chilet and Joaquín Dopazo
    Citation: BioData Mining 2021 14:5
    Content type: Short report Published on:

  39. Prediction of novel Drug–Target interactions (DTIs) plays an important role in discovering new drug candidates and finding new proteins to target. In consideration of the time-consuming and expensive of experi...

    Authors: Ji-Yong An, Fan-Rong Meng and Zi-Ji Yan
    Citation: BioData Mining 2021 14:3
    Content type: Research Published on:

  41. Colon cancer is occurring at an increasing rate and ginger (Zingiber officinale), as a commonly used herbal medicine, has been suggested as a potential agent for colon cancer. This study was aimed to identify the...

    Authors: Meng-Meng Zhang, Dan Wang, Feng Lu, Rong Zhao, Xun Ye, Lin He, Li Ai and Chun-Jie Wu
    Citation: BioData Mining 2021 14:1
    Content type: Research Published on:

  42. Accurate identification of acute ischemic stroke (AIS) patient cohorts is essential for a wide range of clinical investigations. Automated phenotyping methods that leverage electronic health records (EHRs) rep...

    Authors: Phyllis M. Thangaraj, Benjamin R. Kummer, Tal Lorberbaum, Mitchell S. V. Elkind and Nicholas P. Tatonetti
    Citation: BioData Mining 2020 13:21
    Content type: Research Published on:

  43. Determining binding affinity in protein-protein interactions is important in the discovery and design of novel therapeutics and mutagenesis studies. Determination of binding affinity of proteins in the formati...

    Authors: Wajid Arshad Abbasi, Adiba Yaseen, Fahad Ul Hassan, Saiqa Andleeb and Fayyaz Ul Amir Afsar Minhas
    Citation: BioData Mining 2020 13:20
    Content type: Research Published on:

  44. COVID-19 has caused a global pandemic, and there is no wonder drug for epidemic control at present. However, many clinical practices have shown that traditional Chinese medicine has played an important role in...

    Authors: Kai Gao, Yan-Ping Song and Anna Song
    Citation: BioData Mining 2020 13:19
    Content type: Research Published on:

  46. Chinese medicine Xuebijing (XBJ) has proven to be effective in the treatment of mild coronavirus disease 2019 (COVID-19) cases. But the bioactive compounds and potential mechanisms of XBJ for COVID-19 preventi...

    Authors: Wen-jiang Zheng, Qian Yan, Yong-shi Ni, Shao-feng Zhan, Liu-liu Yang, Hong-fa Zhuang, Xiao-hong Liu and Yong Jiang
    Citation: BioData Mining 2020 13:17
    Content type: Research Published on:

  47. Throughout their lifespans, humans continually interact with the microbial world, including those organisms which live in and on the human body. Research in this domain has revealed the extensive links between...

    Authors: Jie Zhou, Weston D. Viles, Boran Lu, Zhigang Li, Juliette C. Madan, Margaret R. Karagas, Jiang Gui and Anne G. Hoen
    Citation: BioData Mining 2020 13:16
    Content type: Methodology Published on:

  48. Chinese medicine Toujie Quwen granule (TJQW) has proven to be effective in the treatment of mild coronavirus disease 2019 (COVID-19) cases by relieving symptoms, slowing the progression of the disease, and boo...

    Authors: Ying Huang, Wen-jiang Zheng, Yong-shi Ni, Mian-sha Li, Jian-kun Chen, Xiao-hong Liu, Xing-hua Tan and Ji-qiang Li
    Citation: BioData Mining 2020 13:15
    Content type: Research Published on:

  49. Various combinations of ultrasonographic (US) characteristics are increasingly utilized to classify thyroid nodules. But they lack theories, and heavily depend on radiologists’ experience, and cannot correctly...

    Authors: Dan Chen, Jun Hu, Mei Zhu, Niansheng Tang, Yang Yang and Yuran Feng
    Citation: BioData Mining 2020 13:14
    Content type: Research Published on:

  50. Identification of non-trivial and meaningful patterns in omics data is one of the most important biological tasks. The patterns help to better understand biological systems and interpret experimental outcomes....

    Authors: František Malinka, Filip železný and Jiří Kléma
    Citation: BioData Mining 2020 13:13
    Content type: Research Published on:
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BioData Mining

ISSN: 1756-0381