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bioinformatics
6 downloads
34 views

The genome–wide study of epigenetic states requires the integrative analysis of histone modification ChIP–seq data. Here, we introduce an easy–to–use analytic framework to compare profiles of enrichment in histone modifications around classes of genomic elements,...

["Bioinformatics","Computational Biology","Genomics","Statistics"]
doi:10.7287/peerj.preprints.1723v2
26 downloads
298 views

Background. Metagenomics is an approach for characterizing environmental microbial communities in situ, it allows their functional and taxonomic characterization and to recover sequences from uncultured taxa. This is often achieved by a combination of sequence...

["Bioinformatics","Computational Biology","Genomics","Taxonomy"]
doi:10.7717/peerj.1603
12 downloads
50 views

Geographical Information Systems (GIS) are considered to be applications-led technology. Consequently, geographic information scientists commonly find themselves as guest in host disciplines in order to best exploit spatial analysis tools and methods, appropriately...

["Bioinformatics","Computational Biology","Spatial and Geographic Information Systems"]
doi:10.7287/peerj.preprints.1721v1
89 downloads
72 views

The natural sciences, such as ecology and earth science, study complex interactions between biotic and abiotic systems in order to infer understanding and make predictions. Machine-learning-based methods have an advantage over traditional statistical methods in...

["Bioinformatics","Ecology","Statistics","Computational Science"]
doi:10.7287/peerj.preprints.1720v1
7 downloads
34 views

Bone Morphogenic Protein 2 (BMP2) is a multipurpose cytokine, important in the development of bone and cartilage, and with a role in tumour initiation and progression. Because of BMP2’s osteogenic properties, a recombinant human version (rhBMP2) has found utility...

["Bioinformatics","Cell Biology","Genomics","Drugs and Devices","Orthopedics"]
doi:10.7287/peerj.preprints.1719v1
35 downloads
204 views

Next generation sequencing (NGS) technology is a widely accepted tool used by microbial ecologists to explore complex microbial communities in different ecosystems. As new NGS platforms continue to become available, it becomes imperative to compare data obtained...

["Bioinformatics","Genomics","Microbiology","Taxonomy","Statistics"]
doi:10.7717/peerj.1599
36 downloads
122 views

Recent additions to the repertoire of gene expression regulatory mechanisms are polyadenylate (polyA) tracks encoding for poly-lysine runs in protein sequences. Such tracks stall the translation apparatus and induce frameshifting independently of the effects of...

["Bioinformatics","Databases"]
doi:10.7717/peerj-cs.45
30 downloads
54 views

Biodiversity analysis of metagenomic and metatranscriptomic data acquired from next-generation sequencing (NGS) requires following multiple analytic steps, often independent from each other with exception of passing output files of previous step as input for the...

["Bioinformatics","Computational Biology"]
doi:10.7287/peerj.preprints.1706v1
263 downloads
767 views

High throughput sequencing has changed many aspects of population genetics, molecular ecology, and related fields, affecting both experimental design and data analysis. The software package ANGSD allows users to perform a number of population genetic analyses on...

["Bioinformatics","Evolutionary Studies","Genetics","Genomics"]
doi:10.7287/peerj.preprints.1472v2
18 downloads
72 views

Omics approaches are widely applied to investigate physiological processes and pathological conditions. Many public data repositories make it possible to extract data for their analyses, comparisons and integrations, provided the availability of suitable tools....

["Biochemistry","Bioinformatics","Computational Biology"]
doi:10.7287/peerj.preprints.1697v1
531 downloads
1,111 views

High-throughput sequencing provides a fast and cost effective mean to recover genomes of organisms from all domains of life. However, adequate curation of the assembly results against potential contamination of non-target organisms requires advanced bioinformatics...

["Bioinformatics","Genomics","Microbiology"]
doi:10.7287/peerj.preprints.1695v1
14 downloads
53 views

Nutraceuticals are food or their parts, present in conventional or non-conventional form, with verified safety and health benefits, beyond their nutritional value. In this work, we describe a novel pipeline for nutraceutical compounds research in the field of pharmacophore...

["Biochemistry","Bioinformatics","Computational Biology","Food Science and Technology"]
doi:10.7287/peerj.preprints.1690v1
167 downloads
767 views

Background. Imaging biomarkers hold tremendous promise in the precision medicine clinical applications. Development of such biomarkers relies heavily on image post-processing tools for automated image quantitation. Their deployment in the context of clinical research...

["Bioinformatics","Clinical Trials","Oncology","Radiology and Medical Imaging"]
doi:10.7287/peerj.preprints.1541v2
85 downloads
572 views

Five closely related populations of bacteria from the Candidate Phylum (CP) Peregrinibacteria, part of the bacterial Candidate Phyla Radiation (CPR), were sampled from filtered groundwater obtained from an aquifer adjacent to the Colorado River near the town of...

["Bioinformatics","Environmental sciences","Genomics","Microbiology"]
doi:10.7717/peerj.1607
5 downloads
35 views

The term biclustering stands for simultaneous clustering of both genes and conditions. This task has generated considerable interest over the past few decades, particularly related to the analysis of high-dimensional gene expression data in information retrieval,...

["Bioinformatics","Computational Biology","Scientific Computing and Simulation"]
doi:10.7287/peerj.preprints.1679v1

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