Skip to main content

Articles

Page 21 of 249

  1. Heritability and genetic correlation can be estimated from genome-wide single-nucleotide polymorphism (SNP) data using various methods. We recently developed multivariate genomic-relatedness-based restricted m...

    Authors: Ronald De Vlaming, Eric A. W. Slob, Patrick J. F. Groenen and Cornelius A. Rietveld
    Citation: BMC Bioinformatics 2022 23:305
    Content type: Software Published on:

  2. The discovery of critical biomarkers is significant for clinical diagnosis, drug research and development. Researchers usually obtain biomarkers from microarray data, which comes from the dimensional curse. Fe...

    Authors: Weidong Xie, Wei Li, Shoujia Zhang, Linjie Wang, Jinzhu Yang and Dazhe Zhao
    Citation: BMC Bioinformatics 2022 23:303
    Content type: Research Published on:

  3. Probabilistic functional integrated networks (PFINs) are designed to aid our understanding of cellular biology and can be used to generate testable hypotheses about protein function. PFINs are generally create...

    Authors: Katherine James, Aoesha Alsobhe, Simon J Cockell, Anil Wipat and Matthew Pocock
    Citation: BMC Bioinformatics 2022 23:302
    Content type: Research Published on:

  4. Identifying protein interfaces can inform how proteins interact with their binding partners, uncover the regulatory mechanisms that control biological functions and guide the development of novel therapeutic a...

    Authors: M. Walder, E. Edelstein, M. Carroll, S. Lazarev, J. E. Fajardo, A. Fiser and R. Viswanathan
    Citation: BMC Bioinformatics 2022 23:301
    Content type: Research Published on:

  5. Protein complexes are essential for biologists to understand cell organization and function effectively. In recent years, predicting complexes from protein–protein interaction (PPI) networks through computatio...

    Authors: Xiaoxu Wang, Yijia Zhang, Peixuan Zhou and Xiaoxia Liu
    Citation: BMC Bioinformatics 2022 23:300
    Content type: Research Published on:

  6. A large number of evidences from biological experiments have confirmed that miRNAs play an important role in the progression and development of various human complex diseases. However, the traditional experime...

    Authors: Dan Huang, JiYong An, Lei Zhang and BaiLong Liu
    Citation: BMC Bioinformatics 2022 23:299
    Content type: Research Published on:

  7. The advent of high throughput sequencing has enabled researchers to systematically evaluate the genetic variations in cancer, identifying many cancer-associated genes. Although cancers in the same tissue are w...

    Authors: Amin Ghareyazi, Amirreza Kazemi, Kimia Hamidieh, Hamed Dashti, Maedeh Sadat Tahaei, Hamid R. Rabiee, Hamid Alinejad-Rokny and Iman Dehzangi
    Citation: BMC Bioinformatics 2022 23:298
    Content type: Research Published on:

  9. Mediation analysis plays a major role in identifying significant mediators in the pathway between environmental exposures and health outcomes. With advanced data collection technology for large-scale studies, ...

    Authors: Chamila Perera, Haixiang Zhang, Yinan Zheng, Lifang Hou, Annie Qu, Cheng Zheng, Ke Xie and Lei Liu
    Citation: BMC Bioinformatics 2022 23:296
    Content type: Research Published on:

  10. Computer-aided analysis of biological images typically requires extensive training on large-scale annotated datasets, which is not viable in many situations. In this paper, we present Generative Adversarial Ne...

    Authors: Alessio Mascolini, Dario Cardamone, Francesco Ponzio, Santa Di Cataldo and Elisa Ficarra
    Citation: BMC Bioinformatics 2022 23:295
    Content type: Research Published on:

  14. In recent years, the introduction of single-cell RNA sequencing (scRNA-seq) has enabled the analysis of a cell’s transcriptome at an unprecedented granularity and processing speed. The experimental outcome of ...

    Authors: Marcin Malec, Hasan Kurban and Mehmet Dalkilic
    Citation: BMC Bioinformatics 2022 23:291
    Content type: Research Published on:

  15. Cluster analysis is an integral part of precision medicine and systems biology, used to define groups of patients or biomolecules. Consensus clustering is an ensemble approach that is widely used in these area...

    Authors: Stephen Coleman, Paul D. W. Kirk and Chris Wallace
    Citation: BMC Bioinformatics 2022 23:290
    Content type: Research Published on:

  16. The segmentation of 3D cell nuclei is essential in many tasks, such as targeted molecular radiotherapies (MRT) for metastatic tumours, toxicity screening, and the observation of proliferating cells. In recent ...

    Authors: Tuomas Kaseva, Bahareh Omidali, Eero Hippeläinen, Teemu Mäkelä, Ulla Wilppu, Alexey Sofiev, Arto Merivaara, Marjo Yliperttula, Sauli Savolainen and Eero Salli
    Citation: BMC Bioinformatics 2022 23:289
    Content type: Research Published on:

  17. Methods for the multiview clustering and integration of multi-omics data have been developed recently to solve problems caused by data noise or limited sample size and to integrate multi-omics data with consis...

    Authors: Hamas A. AL-kuhali, Ma Shan, Mohanned Abduljabbar Hael, Eman A. Al-Hada, Shamsan A. Al-Murisi, Ahmed A. Al-kuhali, Ammar A. Q. Aldaifl and Mohammed Elmustafa Amin
    Citation: BMC Bioinformatics 2022 23:288
    Content type: Research Published on:

  18. Mass spectrometry is an important experimental technique in the field of proteomics. However, analysis of certain mass spectrometry data faces a combination of two challenges: first, even a single experiment p...

    Authors: Konstantin Bob, David Teschner, Thomas Kemmer, David Gomez-Zepeda, Stefan Tenzer, Bertil Schmidt and Andreas Hildebrandt
    Citation: BMC Bioinformatics 2022 23:287
    Content type: Research Published on:

  20. Copy number variants (CNVs) play a significant role in human heredity and disease. However, sensitive and specific characterization of germline CNVs from NGS data has remained challenging, particularly for hyb...

    Authors: Brendan O’Fallon, Jacob Durtschi, Ana Kellogg, Tracey Lewis, Devin Close and Hunter Best
    Citation: BMC Bioinformatics 2022 23:285
    Content type: Software Published on:

  21. Acute myeloid leukemia (AML) is a group of highly heterogenous and aggressive blood cancer. Despite recent progress in its diagnosis and treatment, patient outcome is variable and drug resistance results in in...

    Authors: Huiping Shi, Liang Gao, Weili Zhang and Min Jiang
    Citation: BMC Bioinformatics 2022 23:284
    Content type: Research Published on:

  22. The information about the domain architecture of proteins is useful for studying protein structure and function. However, accurate prediction of protein domain boundaries (i.e., sequence regions separating two...

    Authors: Sajid Mahmud, Zhiye Guo, Farhan Quadir, Jian Liu and Jianlin Cheng
    Citation: BMC Bioinformatics 2022 23:283
    Content type: Research Published on:

  23. Via counting the different kinds of white blood cells (WBCs), a good quantitative description of a person’s health status is obtained, thus forming the critical aspects for the early treatment of several disea...

    Authors: Hua Chen, Juan Liu, Chunbing Hua, Jing Feng, Baochuan Pang, Dehua Cao and Cheng Li
    Citation: BMC Bioinformatics 2022 23:282
    Content type: Research Published on:

  24. Model card reports aim to provide informative and transparent description of machine learning models to stakeholders. This report document is of interest to the National Institutes of Health’s Bridge2AI initia...

    Authors: Muhammad Tuan Amith, Licong Cui, Degui Zhi, Kirk Roberts, Xiaoqian Jiang, Fang Li, Evan Yu and Cui Tao
    Citation: BMC Bioinformatics 2022 23(Suppl 6):281
    Content type: Research Published on:

    This article is part of a Supplement: Volume 23 Supplement 6

  25. The dynamic functional connectivity (dFC) has been used successfully to investigate the dysfunction of Alzheimer's disease (AD) patients. The reconfiguration intensity of nodal dFC, which means the degree of a...

    Authors: Kai Du, Pindong Chen, Kun Zhao, Yida Qu, Xiaopeng Kang and Yong Liu
    Citation: BMC Bioinformatics 2022 23(Suppl 6):280
    Content type: Research Published on:

    This article is part of a Supplement: Volume 23 Supplement 6

  26. The constant evolving and development of next-generation sequencing techniques lead to high throughput data composed of datasets that include a large number of biological samples. Although a large number of sa...

    Authors: Maximilian Sprang, Miguel A. Andrade-Navarro and Jean-Fred Fontaine
    Citation: BMC Bioinformatics 2022 23(Suppl 6):279
    Content type: Research Published on:

    This article is part of a Supplement: Volume 23 Supplement 6

  27. Predicting drug–target interactions (DTIs) has become an important bioinformatics issue because it is one of the critical and preliminary stages of drug repositioning. Therefore, scientists are trying to devel...

    Authors: Reza Hassanzadeh and Soheila Shabani-Mashcool
    Citation: BMC Bioinformatics 2022 23:278
    Content type: Research Published on:

  28. Recent advances in next-generation sequencing technologies have helped investigators generate massive amounts of cancer genomic data. A critical challenge in cancer genomics is identification of a few cancer d...

    Authors: Chenye Wang, Junhan Shi, Jiansheng Cai, Yusen Zhang, Xiaoqi Zheng and Naiqian Zhang
    Citation: BMC Bioinformatics 2022 23:277
    Content type: Research Published on:

  29. Single-cell RNA sequencing (scRNA-seq) allows the detection of rare cell types in complex tissues. The detection of markers for rare cell types is useful for further biological analysis of, for example, flow c...

    Authors: Ronghui Li, Bella Banjanin, Rebekka K. Schneider and Ivan G. Costa
    Citation: BMC Bioinformatics 2022 23:276
    Content type: Research Published on:

  32. DNA Methylation is one of the most important epigenetic processes that are crucial to regulating the functioning of the human genome without altering the DNA sequence. DNA Methylation data for cancer patients ...

    Authors: Noureldin S. Eissa, Uswah Khairuddin and Rubiyah Yusof
    Citation: BMC Bioinformatics 2022 23:273
    Content type: Research Published on:

  34. MircoRNAs (miRNAs) play a central role in diverse biological processes of Camellia sinensis var.assamica (CSA) through their associations with target mRNAs, including CSA growth, development and stress response. ...

    Authors: Haisong Feng, Ying Xiang, Xiaosong Wang, Wei Xue and Zhenyu Yue
    Citation: BMC Bioinformatics 2022 23:271
    Content type: Research Published on:

  35. Metabolomics is a primary omics topic, which occupies an important position in both clinical applications and basic researches for metabolic signatures and biomarkers. Unfortunately, the relevant studies are c...

    Authors: Jingyang Niu, Jing Yang, Yuyu Guo, Kun Qian and Qian Wang
    Citation: BMC Bioinformatics 2022 23:270
    Content type: Research article Published on:

  36. The combined effects of biological variability and measurement-related errors on cancer sequencing data remain largely unexplored. However, the spatio-temporal simulation of multi-cellular systems provides a p...

    Authors: Fabrizio Angaroni, Alessandro Guidi, Gianluca Ascolani, Alberto d’Onofrio, Marco Antoniotti and Alex Graudenzi
    Citation: BMC Bioinformatics 2022 23:269
    Content type: Software Published on:

  37. Biological sequences are increasing rapidly and exponentially worldwide. Nucleotide sequence databases play an important role in providing meaningful genomic information on a variety of biological organisms.

    Authors: Vincent Moco, Damien Cazenave, Maëlle Garnier, Matthieu Pot, Isabel Marcelino, Antoine Talarmin, Stéphanie Guyomard-Rabenirina, Sébastien Breurec, Séverine Ferdinand, Alexis Dereeper, Yann Reynaud and David Couvin
    Citation: BMC Bioinformatics 2022 23:268
    Content type: Software Published on:

  38. Modern mass spectrometry has revolutionized the detection and analysis of metabolites but likewise, let the data skyrocket with repositories for metabolomics data filling up with thousands of datasets. While t...

    Authors: Konstantinos Tzanakis, Tim W. Nattkemper, Karsten Niehaus and Stefan P. Albaum
    Citation: BMC Bioinformatics 2022 23:267
    Content type: Software Published on:

  39. Protein–protein interaction (PPI) is vital for life processes, disease treatment, and drug discovery. The computational prediction of PPI is relatively inexpensive and efficient when compared to traditional we...

    Authors: Yue Jiang, Yuxuan Wang, Lin Shen, Donald A. Adjeroh, Zhidong Liu and Jie Lin
    Citation: BMC Bioinformatics 2022 23:266
    Content type: Research Published on:

  41. Here propose a computer-aided diagnosis (CAD) system to differentiate COVID-19 (the coronavirus disease of 2019) patients from normal cases, as well as to perform infection region segmentation along with infec...

    Authors: Mohammad H. Alshayeji, Silpa ChandraBhasi Sindhu and Sa’ed Abed
    Citation: BMC Bioinformatics 2022 23:264
    Content type: Research Published on:

  42. Although rare diseases are characterized by low prevalence, approximately 400 million people are affected by a rare disease. The early and accurate diagnosis of these conditions is a major challenge for genera...

    Authors: Isabel Segura-Bedmar, David Camino-Perdones and Sara Guerrero-Aspizua
    Citation: BMC Bioinformatics 2022 23:263
    Content type: Research Published on:

  44. Relationships among genetic or epigenetic features can be explored by learning probabilistic networks and unravelling the dependencies among a set of given genetic/epigenetic features. Bayesian networks (BNs) ...

    Authors: Emiliano A. Videla Rodriguez, Fábio Pértille, Carlos Guerrero-Bosagna, John B. O. Mitchell, Per Jensen and V. Anne Smith
    Citation: BMC Bioinformatics 2022 23:261
    Content type: Research Published on:

  46. The COVID-19 pandemic has increasingly accelerated the publication pace of scientific literature. How to efficiently curate and index this large amount of biomedical literature under the current crisis is of g...

    Authors: Jinghang Gu, Rong Xiang, Xing Wang, Jing Li, Wenjie Li, Longhua Qian, Guodong Zhou and Chu-Ren Huang
    Citation: BMC Bioinformatics 2022 23:259
    Content type: Research Published on:

  48. Addressing the laborious nature of traditional biological experiments by using an efficient computational approach to analyze RNA-binding proteins (RBPs) binding sites has always been a challenging task. RBPs ...

    Authors: Jidong Zhang, Bo Liu, Zhihan Wang, Klaus Lehnert and Mark Gahegan
    Citation: BMC Bioinformatics 2022 23:257
    Content type: Research Published on:

  49. Target drugs play an important role in the clinical treatment of virus diseases. Virus-encoded proteins are widely used as targets for target drugs. However, they cannot cope with the drug resistance caused by...

    Authors: Shengrong Xia, Yingchun Xia, Chulei Xiang, Hui Wang, Chao Wang, Jin He, Guolong Shi and Lichuan Gu
    Citation: BMC Bioinformatics 2022 23:256
    Content type: Research article Published on:

Featured videos

View featured videos from across the BMC-series journals

Submit manuscript

Annual Journal Metrics

  • 2022 Citation Impact
    3.0 - 2-year Impact Factor
    4.3 - 5-year Impact Factor
    0.938 - SNIP (Source Normalized Impact per Paper)
    1.100 - SJR (SCImago Journal Rank)

    2023 Speed
    19 days submission to first editorial decision for all manuscripts (Median)
    146 days submission to accept (Median)

    2023 Usage
    5,987,678 downloads
    4,858 Altmetric mentions 

Follow

Sign up for article alerts and news from this journal

BMC Bioinformatics

ISSN: 1471-2105

Contact us