Current Bioinformatics News and Events

Current Bioinformatics News and Events, Bioinformatics News Articles.
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Scientists identify over 140,000 virus species in the human gut
Viruses are the most numerous biological entities on the planet. Now researchers at the Wellcome Sanger Institute and EMBL's European Bioinformatics Institute (EMBL-EBI) have identified over 140,000 viral species living in the human gut, more than half of which have never been seen before. (2021-02-18)

New study suggests better approach in search for COVID-19 drugs
Research from the University of Kent, Goethe-University in Frankfurt am Main, and the Philipps-University in Marburg has provided crucial insights into the biological composition of SARS-CoV-2, the cause of COVID-19, revealing vital clues for the discovery of antiviral drugs. (2021-02-11)

COVID-19 infections in the U.S. nearly three times greater than reported, model estimates
DALLAS - Feb. 8, 2021 - World health experts have long suspected that the incidence of COVID-19 has been higher than reported. Now, a machine-learning algorithm developed at UT Southwestern estimates that the number of COVID-19 cases in the U.S. since the pandemic began is nearly three times that of confirmed cases. (2021-02-08)

MARLIT, artificial intelligence against marine litter
Floating sea macro-litter is a threat to the conservation of marine ecosystems worldwide. The largest density of floating litter is in the great ocean gyres -systems of circular currents that spin and catch litter- but the polluting waste is abundant in coastal waters and semi closed seas such as the Mediterranean. (2021-02-04)

Reindeer lichens are having more sex than expected
Scientists thought that reindeer lichens (moss-looking organisms that form a major part of reindeer diets) reproduced mainly asexually by cloning themselves. But it turns out, reindeer lichens are having a lot more sex than scientists expected. In a new study, researchers found that the reindeer lichens they examined have unexpected levels of genetic diversity, indicating that the lichens have been doing more gene-mixing with each other than the scientists would have guessed. (2021-01-29)

Comprehensive characterization of vascular structure in plants
With funding from the Alexander von Humboldt Foundation, two teams of plant researchers and bioinformatics researchers under the leadership of Heinrich Heine University Düsseldorf (HHU) have succeeded for the first time in identifying the functions of the different cell types in the leaf vasculature of plants. They present their fundamental findings in the current edition of the journal ''The Plant Cell''. (2021-01-12)

Researchers developed a sequence analysis pipeline for virus discovery
A novel bioinformatics pipeline identifies both previously known and novel viruses. (2020-12-03)

Glyphosate may affect human gut microbiota
More than half of bacterial species in the core of the human gut microbiome are potentially sensitive to glyphosate, shows new research. Researchers from the University of Turku Finland, introduced the first bioinformatics resource to determine and test the potential sensitivity of organisms to glyphosate. (2020-11-20)

Importance of mitochondrial-related genes in dilated cardiomyopathy
Importance of Mitochondrial-Related Genes in Dilated Cardiomyopathy Based on Bioinformatics Analysis. In a new publication from Cardiovascular Innovations and Applications; DOI https://doi.org/10.15212/CVIA.2019.0588, Yukuan Chen, Xiaohui Wu, Danchun Hu and Wei Wang, from the Shantou University Medical College, Shantou, China and Second Affiliated Hospital of Shantou University Medical College, Shantou, China consider the importance of mitochondrial-related genes in dilated cardiomyopathy. (2020-11-19)

Predicting the risk of severe side effects of cancer treatment
The risk of serious adverse effects on the blood status and bone marrow of patients during chemotherapy can be predicted by a model developed at Linköping University, Sweden. This research may make it possible to use genetic analysis to identify patients with a high probability of side effects. The study has been published in npj Systems Biology and Applications. (2020-11-12)

New prediction algorithm identifies previously undetected cancer driver genes
A new study, led by researchers from the University of California, Irvine, has deepened the understanding of epigenetic mechanisms in tumorigenesis and revealed a previously undetected repertoire of cancer driver genes. The study was published this week in Science Advances. (2020-11-12)

Large-scale cancer proteomics study profiles protein changes in response to drug treatments
Through large-scale profiling of protein changes in response to drug treatments in cancer cell lines, researchers at The University of Texas MD Anderson Cancer Center have generated a valuable resource to aid in predicting drug sensitivity, to understand therapeutic resistance mechanisms and to identify optimal combination treatment strategies. (2020-11-05)

Illinois study tracks evolution of SARS-CoV-2 virus mutations
Since COVID-19 began its menacing march across Wuhan, China, in December 2019, and then across the world, the SARS-CoV-2 virus has taken a 'whatever works' strategy to ensure its replication and spread. But in a new study published in Evolutionary Bioinformatics, University of Illinois researchers and students show the virus is honing the tactics that may make it more successful and more stable. (2020-10-26)

Repurposing drugs for a pan-coronavirus treatment
The study identifies drug targets common to all three coronaviruses (SARS-CoV-2, SARS-CoV-1, and MERS-CoV) and potential drugs that could be repurposed as COVID-19 treatments. The researchers suggest that repurposed pan-coronavirus therapeutics may offer a rapid treatment response against future emerging coronavirus strains (2020-10-15)

Synthego's CRISPR platform enables faster ID of potential Coronavirus treatment
Synthego, the genome engineering company, has collaborated with The Krogan Lab, a world-renowned scientific research unit at the Quantitative Biosciences Institute (QBI) at the University of California, San Francisco (UCSF), to deliver multiple CRISPR-based engineered cell lines to accelerate the study of potential treatment targets for SARS-CoV-2, the novel coronavirus that causes COVID-19 disease. (2020-10-15)

A deadly long-distance hunter: DNA study reveals insights about the scimitar-toothed cat
Researchers from the University of Copenhagen have mapped the entire nuclear genome of a sabre-toothed cat. The genetic study reveals new insights about a socially intelligent pack animal, specialized in endurance-based hunting over long distances. (2020-10-15)

A new assembler for decoding genomes of microbial communities developed
The metaFlye assembler is designed to assemble DNA samples from microbial communities. With its help, it is possible to solve a wide range of fundamental and applied problems, among which is the control of the process of treating patients and even the creation of new drugs. (2020-10-08)

Early COVID-19 cases in Southern California linked to New York
Most COVID-19 (coronavirus) patients in Southern California during the early months of the pandemic appear to have been infected by a variant of the SARS-CoV-2 virus introduced to the region from New York state via Europe, not directly from China. (2020-10-07)

App analyzes coronavirus genome on a smartphone
A team led by Garvan's Dr Ira Deveson developed the app 'Genopo' that can analyse the coronavirus genome on a portable Android device. (2020-09-29)

Next-gen bioinformatics tool enables big data analysis without programming expertise
A new data analysis tool developed by MD Anderson researchers incorporates a user-friendly, natural-language interface to aid biomedical researchers without bioinformatics or programming expertise to conduct intuitive data. (2020-09-24)

The co-occurrence of cancer driver genes, key to precision medicine
Researchers from the Structural Bioinformatics and Network Biology Laboratory at IRB Barcelona develop a system to predict tumour response to different treatments. Called Targeted Cancer Therapy for You (TCT4U), this system has allowed them to identify a set of complex biomarkers that are available to the medical-scientific community. The work has been published in the journal Genome Medicine. (2020-09-22)

Unlocking the secrets of plant genomes in high resolution
Resolving genomes, particularly plant genomes, is a very complex and error-prone task. This is because there are several copies of all of the chromosomes and they are very alike. A team of bioinformatics researchers from Heinrich Heine University Düsseldorf (HHU) has now developed a software tool that allows for precise assignment to the correct copies - a process known as 'phasing'. They present their development in the latest online edition of the journal Genome Biology. (2020-09-21)

Scientists predict economically important traits of crops
Researchers developed a new mathematical model to predict economic performance of crops. It can assist the breeders to obtain the plants with the highest possible quality. (2020-09-18)

Evolutionary paths: Scientists have found new patterns in protein evolution
Russian scientists studied the trends in the evolution of amino acid sequences of proteins in vertebrates and insects. External factors can be considered as a reason for positive selection affecting genomic positions and serve as an essential aspect of the rapid evolution. But the effect of epistasis is manifested in positions under negative selection, as a result of which substitutions occur less often in them - they evolve more slowly. (2020-09-18)

Prediction of protein disorder from amino acid sequence
Structural disorder is vital for proteins' function in diverse biological processes. It is therefore highly desirable to be able to predict the degree of order and disorder from amino acid sequence. Researchers from Aarhus University have developed a prediction tool by using machine learning together with experimental NMR data for hundreds of proteins, which is envisaged to be useful for structural studies and understanding the biological role and regulation of proteins with disordered regions. (2020-09-09)

More than just genetic code
Researchers discover how messenger RNAs transport information to where photosynthesis takes place. (2020-09-08)

A new model to predict survival in colorectal cancer
This signature could be useful in clinical practice, especially for colorectal cancer diagnosis and therapy. Future studies should determine the effectiveness of integration in cancer survival analysis and the application on unbalanced data, where the classes are of different sizes, as well as on data with multiple classes. (2020-09-03)

Genomic analysis of STEC in a child reveals insights on a virulent, emerging fo
University at Buffalo researchers have completed the genomic analysis of an increasingly common strain of Shiga-toxin E. coli (STEC) that can cause severe disease outbreaks. (2020-09-02)

Study reveals two major microbial groups can't breathe
A new scientific study has revealed unique life strategies of two major groups of microbes that live below Earth's surface. A publication in Frontiers in Microbiology reports that these groups, originally thought to rely on symbiotic relationships with other organisms, may also live independently and use an ancient mode of energy production. (2020-08-25)

Applying machine learning to biomedical science
Dr Pengyi Yang and colleagues from the University of Sydney have brought together the latest developments in applications of machine learning in biomedical science, showing that new techniques are combining ensemble methods with deep learning, with potential applications in cancer research and better understanding viruses. (2020-08-17)

The flax wilt agent has been sequenced
Researchers teamed up to sequence and assemble genome of Fusarium oxysporum f.sp. lini, a highly destructive fungal parasite infecting flax. The results of the study were published in the Molecular Plant-Microbe Interactions. (2020-08-14)

Multi-species bacterial communities bounce back from environmental disturbances
Perturbations in the environment are common, and communities consisting of several species seem to find their way around the crisis. Species immigration is beneficial for community recovery. (2020-08-10)

The curious genome of the tuatara, an ancient reptile in peril
International scientists and Ngātiwai, a Māori tribe, teamed up to sequence the genome of a rare reptile, the tuatara, uncovering some unique aspects of the tuatara's evolution. The genome sequence will enable comparative studies to better understand the evolution of the tuatara and its distant relatives: other reptiles, birds, and mammals. Shedding light on the tuatara's biology will help protect this vulnerable species. (2020-08-05)

Unparalleled inventory of the human gut ecosystem
Scientists gathered and published over 200 000 genomes from the human gut microbiome. The catalogue reveals that more than 70% of bacterial species in the human gut have never been grown in the lab. This new data resource could be extremely useful to investigate how the bacterial community in the human gut influences human health and disease. (2020-07-27)

Artificial intelligence finds patterns of mutations and survival in tumour images
Scientists have used artificial intelligence to search for patterns of molecular abnormalities in tumour tissue sections across 28 cancer types. They analysed more than 17 000 tumour microscopy images and found that the appearance of tumour cells and tissues offers insights into the underlying genetic causes. The research could help scientists develop diagnostic tools for when molecular tests are unavailable, and refine patient risk prediction (2020-07-27)

Hidden in our genes: Discovering the fate of cell development
Scientists at the University of Sydney have developed a powerful new tool to analyse the fate of cell development by examining individual cells and genetic development within them. Dubbed scHOT for single-cell higher-order testing, the scientists expect the new analytical tool will help develop therapeutic treatments for a wide range of diseases. (2020-07-13)

MIPT bioinformaticians find way to personalize drug prescription against stomach cancer
Researchers from the Moscow Institute of Physics and Technology and their colleagues have developed the first technique for personalizing stomach cancer therapy based on RNA sequencing of tumor cells. The study, supported by the Russian Science Foundation, was published in Cold Spring Harbor Molecular Case Studies. (2020-06-30)

Study uses RNA sequencing as alternative to immunohistochemistry in cancer diagnostics
For the first time, researchers from the Moscow Institute of Physics and Technology and their colleagues have succeeded in using RNA sequencing as an alternative to immunohistochemistry for cancer diagnostics. (2020-06-25)

Tracking down cryptic peptides
Using a newly developed method, researchers from the University of Würzburg, in cooperation with the University Hospital of Würzburg, were able to identify thousands of special peptides on the surface of cells for the first time. They were able to show that these so-called cryptic peptides mark a significant proportion of tumor cells. These findings could provide a new starting point for cancer immunotherapy. (2020-06-23)

Fish farming alters microbial communities, and reduces nitrate levels in pond ecosystems
The N and P fractions and water environmental factors influenced the microbial community structure and diversity in pond ecosystems. Fish farming indirectly affected the microbial community by altering the contents of N and P fractions in water bodies of ponds when a natural pond was converted to a managed fish pond. (2020-06-22)

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