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  1. The nematode worm, Caenorhabditis elegans, is a saprophytic species that has been emerging as a standard model organism since the early 1960s. This species is useful in numerous fields, including developmental bi...

    Authors: Peng-Cheng Chen, Li Ruan, Jie Jin, Yu-Tian Tao, Xiao-Bao Ding, Hai-bo Zhang, Wen-Ping Guo, Qiao-lei Yang, Heng Yao and Xin Chen

    Citation: Biology Direct 2020 15:20

    Content type: Research

    Published on:

  3. The identification of individual or clusters of predictive genetic alterations might help in defining the outcome of cancer treatment, allowing for the stratification of patients into distinct cohorts for sele...

    Authors: Ivano Amelio, Riccardo Bertolo, Pierluigi Bove, Eleonora Candi, Marcello Chiocchi, Chiara Cipriani, Nicola Di Daniele, Carlo Ganini, Hartmut Juhl, Alessandro Mauriello, Carla Marani, John Marshall, Manuela Montanaro, Giampiero Palmieri, Mauro Piacentini, Giuseppe Sica…

    Citation: Biology Direct 2020 15:18

    Content type: Review

    Published on:

  7. The transamidase complex is a molecular machine in the endoplasmic reticulum of eukaryotes that attaches a glycosylphosphatidylinositol (GPI) lipid anchor to substrate proteins after cleaving a C-terminal prop...

    Authors: Chinh Tran-To Su, Swati Sinha, Birgit Eisenhaber and Frank Eisenhaber

    Citation: Biology Direct 2020 15:14

    Content type: Research

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  8. Inferring the mechanisms that drive transcriptional regulation is of great interest to biologists. Generally, methods that predict physical interactions between transcription factors (TFs) based on positional ...

    Authors: Stefano Perna, Pietro Pinoli, Stefano Ceri and Limsoon Wong

    Citation: Biology Direct 2020 15:13

    Content type: Research

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  9. AMDock (Assisted Molecular Docking) is a user-friendly graphical tool to assist in the docking of protein-ligand complexes using Autodock Vina and AutoDock4, including the option of using the Autodock4Zn force...

    Authors: Mario S. Valdés-Tresanco, Mario E. Valdés-Tresanco, Pedro A. Valiente and Ernesto Moreno

    Citation: Biology Direct 2020 15:12

    Content type: Application note

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  10. LINC00426 is a newly identified long non-coding RNA (lncRNA) with unacknowledged biological roles. Here we set out to characterize the expression status of LINC00426 in osteosarcoma and understand its mechanis...

    Authors: Lulin Wang, Yi Luo, Yiquan Zheng, Lifeng Zheng, Wenxiang Lin, Zonglin Chen, Shichun Wu, Jinhong Chen and Yun Xie

    Citation: Biology Direct 2020 15:11

    Content type: Research

    Published on:

  11. Glioma is one of the most common malignant brain tumors and exhibits low resection rate and high recurrence risk. Although a large number of glioma studies powered by high-throughput sequencing technologies ha...

    Authors: Lin Liu, Guangyu Wang, Liguo Wang, Chunlei Yu, Mengwei Li, Shuhui Song, Lili Hao, Lina Ma and Zhang Zhang

    Citation: Biology Direct 2020 15:10

    Content type: Research

    Published on:

  12. The origin of the selective nuclear protein import machinery, which consists of nuclear pore complexes and adaptor molecules interacting with the nuclear localization signals (NLSs) of cargo molecules, is one ...

    Authors: Olga M. Lisitsyna, Margarita A. Kurnaeva, Eugene A. Arifulin, Maria Y. Shubina, Yana R. Musinova, Andrey A. Mironov and Eugene V. Sheval

    Citation: Biology Direct 2020 15:9

    Content type: Research

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  15. Accurate classification of different Burkholderia cepacia complex (BCC) species is essential for therapy, prognosis assessment and research. The taxonomic status of BCC remains problematic and an improved knowled...

    Authors: Yuan Jin, Jianglin Zhou, Jing Zhou, Mingda Hu, Qi Zhang, Na Kong, Hongguang Ren, Long Liang and Junjie Yue

    Citation: Biology Direct 2020 15:6

    Content type: Research

    Published on:

  16. Until recently, our planet was thought to be home to ~ 107 species, largely belonging to plants and animals. Despite being the most abundant organisms on Earth, the contribution of microbial life to global biodiv...

    Authors: Jay T. Lennon and Kenneth J. Locey

    Citation: Biology Direct 2020 15:5

    Content type: Comment

    Published on:

  17. Drug-induced liver injury (DILI) is a major concern in drug development, as hepatotoxicity may not be apparent at early stages but can lead to life threatening consequences. The ability to predict DILI from in...

    Authors: Marco Chierici, Margherita Francescatto, Nicole Bussola, Giuseppe Jurman and Cesare Furlanello

    Citation: Biology Direct 2020 15:3

    Content type: Research

    Published on:

  18. Nutrition plays a crucial role in regulating reproductive hormones and follicular development in cattle. This is visible particularly during the time of negative energy balance at the onset of milk production ...

    Authors: Mohamed Omari, Alexander Lange, Julia Plöntzke and Susanna Röblitz

    Citation: Biology Direct 2020 15:2

    Content type: Research

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  19. Drug-induced liver injury (DILI) is a serious concern during drug development and the treatment of human disease. The ability to accurately predict DILI risk could yield significant improvements in drug attrit...

    Authors: G. Rex Sumsion, Michael S. Bradshaw III, Jeremy T. Beales, Emi Ford, Griffin R. G. Caryotakis, Daniel J. Garrett, Emily D. LeBaron, Ifeanyichukwu O. Nwosu and Stephen R. Piccolo

    Citation: Biology Direct 2020 15:1

    Content type: Research

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  21. Patients diagnosed as diffuse large B cell lymphoma (DLBCL) with CD5 positive normally have a worse outcome and poorly respond to the regulatory treatment strategy.

    Authors: Qingyuan Qu, Ying Li, Xiaosheng Fang, Lingyan Zhang, Chao Xue, Xueling Ge, Xin Wang and Yujie Jiang

    Citation: Biology Direct 2019 14:23

    Content type: Research

    Published on:

  22. Recently high-throughput technologies have been massively used alongside clinical tests to study various types of cancer. Data generated in such large-scale studies are heterogeneous, of different types and fo...

    Authors: Iliyan Mihaylov, Maciej Kańduła, Milko Krachunov and Dimitar Vassilev

    Citation: Biology Direct 2019 14:22

    Content type: Research

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  23. Metaproteomics allows to decipher the structure and functionality of microbial communities. Despite its rapid development, crucial steps such as the creation of standardized protein search databases and reliab...

    Authors: Johannes Werner, Augustin Géron, Jules Kerssemakers and Sabine Matallana-Surget

    Citation: Biology Direct 2019 14:21

    Content type: Application note

    Published on:

  25. Accumulating evidence suggests that the human microbiome impacts individual and public health. City subway systems are human-dense environments, where passengers often exchange microbes. The MetaSUB project pa...

    Authors: Chengsheng Zhu, Maximilian Miller, Nick Lusskin, Yannick Mahlich, Yanran Wang, Zishuo Zeng and Yana Bromberg

    Citation: Biology Direct 2019 14:19

    Content type: Research

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  27. Determining the factors involved in the likelihood of a gene being under adaptive selection is still a challenging goal in Evolutionary Biology. Here, we perform an evolutionary analysis of the human metabolic...

    Authors: Begoña Dobon, Ludovica Montanucci, Juli Peretó, Jaume Bertranpetit and Hafid Laayouni

    Citation: Biology Direct 2019 14:17

    Content type: Research

    Published on:

  28. Neuroblastoma is one of the most common types of pediatric cancer. In current neuroblastoma prognosis, patients can be stratified into high- and low-risk groups. Generally, more than 90% of the patients in the...

    Authors: Yatong Han, Xiufen Ye, Chao Wang, Yusong Liu, Siyuan Zhang, Weixing Feng, Kun Huang and Jie Zhang

    Citation: Biology Direct 2019 14:16

    Content type: Research

    Published on:

  29. The availability of hundreds of city microbiome profiles allows the development of increasingly accurate predictors of the origin of a sample based on its microbiota composition. Typical microbiome studies inv...

    Authors: Carlos S. Casimiro-Soriguer, Carlos Loucera, Javier Perez Florido, Daniel López-López and Joaquin Dopazo

    Citation: Biology Direct 2019 14:15

    Content type: Research

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  35. CB2 (cannabinoid receptor 2) agonists have been shown to exert anti-tumor activities in different tumor types. However, there is no study exploring the role of MDA19 (a novel CB2 agonist) in tumors. In this study...

    Authors: Mei Rao, Dongfeng Chen, Peng Zhan and Jianqing Jiang

    Citation: Biology Direct 2019 14:9

    Content type: Research

    Published on:

  36. Integrating the rich information from multi-omics data has been a popular approach to survival prediction and bio-marker identification for several cancer studies. To facilitate the integrative analysis of mul...

    Authors: So Yeon Kim, Hyun-Hwan Jeong, Jaesik Kim, Jeong-Hyeon Moon and Kyung-Ah Sohn

    Citation: Biology Direct 2019 14:8

    Content type: Research

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  37. Rubber tree (Hevea brasiliensis) acts as an important tropic economic crop and rubber tree anthracnose, mainly caused by Colletotrichum gloeosporioides, is one of the most common fungal disease, which leads to se...

    Authors: Hongyan Yin, Xiaodong Zhang, Bei Zhang, Hongli Luo and Chaozu He

    Citation: Biology Direct 2019 14:7

    Content type: Research

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  38. Splice sites prediction has been a long-standing problem in bioinformatics. Although many computational approaches developed for splice site prediction have achieved satisfactory accuracy, further improvement ...

    Authors: Ying Zeng, Hongjie Yuan, Zheming Yuan and Yuan Chen

    Citation: Biology Direct 2019 14:6

    Content type: Research

    Published on:

  39. In the recent years, genomic and pan-genomic studies have become increasingly important. Culturomics allows to study human microbiota through the use of different culture conditions, coupled with a method of r...

    Authors: Aurélia Caputo, Pierre-Edouard Fournier and Didier Raoult

    Citation: Biology Direct 2019 14:5

    Content type: Review

    Published on:

  40. More than 90% of neuroblastoma patients are cured in the low-risk group while only less than 50% for those with high-risk disease can be cured. Since the high-risk patients still have poor outcomes, we need mo...

    Authors: Yatong Han, Xiufen Ye, Jun Cheng, Siyuan Zhang, Weixing Feng, Zhi Han, Jie Zhang and Kun Huang

    Citation: Biology Direct 2019 14:4

    Content type: Research

    Published on:

  41. Some tumor cells can evolve into transmissible parasites. Notable examples include the Tasmanian devil facial tumor disease, the canine transmissible venereal tumor and transmissible cancers of mollusks. We pr...

    Authors: A. Y. Panchin, V. V. Aleoshin and Y. V. Panchin

    Citation: Biology Direct 2019 14:3

    Content type: Hypothesis

    Published on:

  43. Protein-protein interactions are crucial for normal biological processes and to regulate cellular reactions that affect gene expression and function. Several previous studies have emphasized the roles of resid...

    Authors: Srinivasan Jayashree, Pavalam Murugavel, Ramanathan Sowdhamini and Narayanaswamy Srinivasan

    Citation: Biology Direct 2019 14:1

    Content type: Research

    Published on:

  44. Genetic parasites are ubiquitous satellites of cellular life forms most of which host a variety of mobile genetic elements including transposons, plasmids and viruses. Theoretical considerations and computer s...

    Authors: Faina Berezovskaya, Georgy P. Karev, Mikhail I. Katsnelson, Yuri I. Wolf and Eugene V. Koonin

    Citation: Biology Direct 2018 13:27

    Content type: Research

    Published on:

  45. A recent paper by (Gerlitz et al., Biol Direct 13:21, 2018) questions the validity of the data underlying prior analyses on the bioenergetics capacities of cells, and continues to promote the idea that the mit...

    Authors: Michael Lynch and Georgi K. Marinov

    Citation: Biology Direct 2018 13:26

    Content type: Commentary

    Published on:

    The Comment to this article has been published in Biology Direct 2018 13:21

  46. Reproducing cell processes using an in silico system is an essential tool for understanding the underlying mechanisms and emergent properties of this extraordinary complex biological machine. However, computat...

    Authors: Luis S. Mayorga, Ignacio Cebrian, Meghna Verma, Stefan Hoops and Josep Bassaganya-Riera

    Citation: Biology Direct 2018 13:25

    Content type: Research

    Published on:

  47. The relatively fast selection of symbiotic bacteria within hosts and the potential transmission of these bacteria across generations of hosts raise the question of whether interactions between host and bacteri...

    Authors: Dino Osmanovic, David A. Kessler, Yitzhak Rabin and Yoav Soen

    Citation: Biology Direct 2018 13:24

    Content type: Research

    Published on:

  48. It is widely accepted that the last eukaryotic common ancestor and early eukaryotes were intron-rich and intron loss dominated subsequent evolution, thus the presence of only very few introns in some modern eu...

    Authors: Min Xue, Bing Chen, Qingqing Ye, Jingru Shao, Zhangxia Lyu and Jianfan Wen

    Citation: Biology Direct 2018 13:23

    Content type: Research

    Published on:

  50. The origin of eukaryotic cells was an important transition in evolution. The factors underlying the origin and evolutionary success of the eukaryote lineage are still discussed. One camp argues that mitochondr...

    Authors: Marie Gerlitz, Michael Knopp, Nils Kapust, Joana C. Xavier and William F. Martin

    Citation: Biology Direct 2018 13:21

    Content type: Comment

    Published on:

    The Commentary to this article has been published in Biology Direct 2018 13:26

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Biology Direct

ISSN: 1745-6150

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