Escherichia coli Genome-Scale Metabolic Models Could Guide Construction of Proof-of-Principle Strains- Crimson Publishers

Escherichia coli Genome-Scale Metabolic Models Could Guide Construction of Proof-of-Principle Strains by Bashir Sajo Mienda in Open Access Biostatistics & Bioinformatic- Crimson Publishers: Bioinformatics Open Access Journals

Escherichia coli genome-scale metabolic models (GEMs) have been published with ability to predict metabolic engineering capabilities that could be consistent with experimental measurements. However, the GEMs have limited scope, and the models are of two types, metabolism models (M-model), and metabolism and gene expression (ME-model) that could guide the constructions of proof-of-principle strains of particularly E. coli bacterium that may find applications in metabolic engineering strategies, synthetic biology [1], and beyond. GEMs have been clearly established to be capable of predicting metabolic engineering capabilities and could sometime lead to biological discoveries for missing reactions and/or missing gene functions [2-4]. In addition, systems metabolic engineering has proof useful with the use of GEMs where time consuming experimental trial and error was shortened by predicting engineering strategies using GEMs. Although sometimes prediction could fail to agree with experimental data, but in that circumstances missing knowledge can be uncovered and gaps in the reconstruction can therefore be bridged leading to novel biological discoveries [3,4].

https://crimsonpublishers.com/oabb/fulltext/OABB.000518.php

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Bio-Informatics & Bio-Statistics for the Third Millennium- Crimson Publishers

Bio-Informatics & Bio-Statistics for the Third Millennium by Eduard Babulak* in Open Access Biostatistics & Bioinformatics-Crimson Publishers: Bioinformatics OpenAccess Journals

Given the continuous increase of computation, the applied informatics biostatistics play essential role in collecting and processing enormous large amount of data generated by biological experiments, environment pollution, climate change, human health. Biostatistics is the application of statistics to a wide range of topics in biology [1]. Bioinformatics is both an umbrella term for the body of biological studies that use computer programming as part of their methodology, as well as a reference to specific analysis “pipelines” that are repeatedly used, particularly in the field of genomics [2]. The clean environment and healthy food supply to people all over the world is one of the most critical challenges for all mankind. The governments in developing countries are under enormous pressure to provide proper medical services, supply of healthy food, drinkable water, as well as creating opportunities to farm and harvest.

https://crimsonpublishers.com/oabb/fulltext/OABB.000517.php

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A New Strategy of the Bag-of-Word Method with a Multi-scale Representation for Evaluating Color Pairwise Descriptors- Crimson Publishers

A New Strategy of the Bag-of-Word Method with a Multi-scale Representation for Evaluating Color Pairwise Descriptors by Ahmed Kaffel in Open Access Biostatistics & Bioinformatic: crimson publishers open access journal- Crimson Publishers

In the field of image categorization, the Bag-Of-Word has proved to be successful. It treats local image features as visual words. After collecting all local features, each image is represented by a histogram of occurrences of visual words. In this work, we propose an extension to the Bag-Of-Words (BOW) by integrating the spatial relationships information between local features. In a first step, we extract local features by using both multi-scale representation and color descriptors based on HSV-SIFT, opponent-SIFT, RGB-SIFT, rg-SIFT and transformed-color-SIFT. In a second step, and in  order to represent the relationships between local features, we form pairwise color descriptors by joining pairs of spatially neighbor SIFT color features. In a third step, we encode the histograms which involve the occurrence of pairwise color descriptors by applying the BOW strategy and the Spatial Pyramid Representation (SPR). Finally, image classification is carried out by using Support Vector Machine (SVM) on the generated histograms. Our proposed method is tested and validated using the standard image datasets “Pascal Voc 2007”.

https://crimsonpublishers.com/oabb/fulltext/OABB.000516.php

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Mining Online Author’s Publication to Report the Core Research Domain with PubMed MeSH Terms: a Systematic Review for a Journal- Crimson Publishers

Mining Online Author’s Publication to Report the Core Research Domain with PubMed MeSH Terms: a Systematic Review for a Journal by Tsair Wei Chien in Open Access Biostatistics & Bioinformatic: Crimson Publishers- crimson publishers open access journal

Background: Identifying an author’s research domain (RD) using MeSH (Medical Subject Headings) terms is essential for a journal’s development and its readership, but no journal uses mining online methods or social network analysis (SNA) to extract journal publication information to report an author’s contributions.

Objective: To select prestigious authors and papers that have contributed most to a journal, we retrospectively (1) calculated an SCI (Science Citation Index) journal’s most recent impact factors (IF) and (2) used graphical representations that include MeSH terms of RDs for authors and journals.

Methods: We collected 2,053 papers published between July 1, 1999, and April 3, 2017, in the Journal of Medical Internet Research (JMIR) and cited by 673 journals, for which we also collected annual IFs for 394 SCI journals, including the JMIR. The prestigious authors and JMIR papers based on the weight of the 5-year SCI IFs from 394 cited-by papers in 2015. The JMIR core aims and scope are presented using major MeSH terms based on their corresponding average weighted scores. Social network analysis was used to create a graphical RD pattern for JMIR, and its prestigious papers and authors.

https://crimsonpublishers.com/oabb/fulltext/OABB.000515.php

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Mining Online Author’s Publication to Report the Core Research Domain with PubMed MeSH Terms: a Systematic Review for a Journal- Crimson Publishers

Mining Online Author’s Publication to Report the Core Research Domain with PubMed MeSH 

Terms: a Systematic Review for a Journal by Tsair Wei Chien in Open Access Biostatistics & 

Bioinformatic: Crimson Publishers_ Bioinformatics Open Access Journals

Background: Identifying an author’s research domain (RD) using MeSH (Medical Subject Headings)
terms is essential for a journal’s development and its readership, but no journal uses mining online 
methods or social network analysis (SNA) to extract journal publication information to report an 
author’s contributions.


Objective: To select prestigious authors and papers that have contributed most to a journal, 
we retrospectively (1) calculated an SCI (Science Citation Index) journal’s most recent impact 
factors (IF) and (2) used graphical representations that include MeSH terms of RDs for authors 
and journals.


Methods: We collected 2,053 papers published between July 1, 1999, and April 3, 2017, in the 
Journal of Medical Internet Research (JMIR) and cited by 673 journals, for which we also 
collected annual IFs for 394 SCI journals, including the JMIR. The prestigious authors and JMIR 
papers based on the weight of the 5-year SCI IFs from 394 cited-by papers in 2015. The JMIR 
core aims and scope are presented using major MeSH terms based on their corresponding 
average weighted scores. Social network analysis was used to create a graphical RD pattern for 
JMIR, and its prestigious papers and authors.


Results: All JMIR 5-year IFs have not been less than 2.9 for the past 14 years. The authors who 
contributed most to JMIR in a number of publications and weighted citations are Gunther 
Eysenbach and My Hua. Their cohesion measures (ranging from 0 to 1.0) to JMIR are 34% and 
5.7%, respectively. The highest prestige weighted contribution among papers published in JMIR 
is the one (PMID: 23567935 /DOI: 10.2196/jmir.2324) with a cohesion measure of 4.5%.


Conclusion: An author’s research domain is required with an essential and graphical 
presentation along with the author’s submission to the target journal. Journal editors also 
look forward to evaluating an author’s research domain and the submitted paper’s cohesion 
measure for the journal.


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Cuckoo Search and Firefly Algorithms- Biologically Inspired Algorithms- Crimson Publishers

Cuckoo Search and Firefly Algorithms- Biologically Inspired Algorithms by SM Kamalapur in Open Access Biostatistics & Bioinformatic: Crimson Publishers- Bioinformatics Open Access Journals

Optimization is an important subject with a wide range of applications. Biologically inspired algorithms are becoming powerful to solve optimization problem. This paper intends to provide brief overview of two biologically inspired algorithms namely cuckoo search and firefly algorithms. Application areas of these algorithms are listed in the paper.

https://crimsonpublishers.com/oabb/fulltext/OABB.000514.php

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Writing Research Paper: Challenges and Solutions- Crimson Publishers

Writing Research Paper: Challenges and Solutions by Kshitij Shinghal in Open Access Biostatistics & Bioinformatics: Crimson Publishers- Bioinformatics Open Access Journals

Dear colleagues, being the part of the editorial team of this reputed journal, I feel very privileged and delighted to get an opportunity to write an editorial opinion article for the journal. I would like to thank all the contributors i.e. authors, reviewer's, editors etc. of the journal on behalf of editorial team of the Crimson Publishers, Open Access Journal of Biostatistics & Bioinformatics. In my academic journey, I have experienced that more than once students are found to confront a perplexing situation: why to write or publish an academic research paper. Further, even if due to some compelling factors (like obligation to faculty in-charge, supervisor etc.) if forced to write thesis/reports, they again come across a challenging situation, why at all to publish the research paper? A fear of rejection is always there in their minds, "If I ever submitted a paper it will be rejected". Believe in yourself, you can do it too, go out submit a paper, take the reviews positively, modify and resubmit and you’ve done it.

https://crimsonpublishers.com/oabb/fulltext/OABB.000512.php

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