Visualizing genome and systems biology: technologies, tools, implementation techniques and trends, past, present and future

GA Pavlopoulos, D Malliarakis, N Papanikolaou… - …, 2015 - academic.oup.com
Abstract “Α picture is worth a thousand words.” This widely used adage sums up in a few
words the notion that a successful visual representation of a concept should enable easy …

PredictProtein—an open resource for online prediction of protein structural and functional features

G Yachdav, E Kloppmann, L Kajan… - Nucleic acids …, 2014 - academic.oup.com
PredictProtein is a meta-service for sequence analysis that has been predicting structural
and functional features of proteins since 1992. Queried with a protein sequence it returns …

The ocean sampling day consortium

A Kopf, M Bicak, R Kottmann, J Schnetzer, I Kostadinov… - Gigascience, 2015 - Springer
Abstract Ocean Sampling Day was initiated by the EU-funded Micro B3 (Marine Microbial
Biodiversity, Bioinformatics, Biotechnology) project to obtain a snapshot of the marine …

shinyheatmap: Ultra fast low memory heatmap web interface for big data genomics

BB Khomtchouk, JR Hennessy, C Wahlestedt - PloS one, 2017 - journals.plos.org
Background Transcriptomics, metabolomics, metagenomics, and other various next-
generation sequencing (-omics) fields are known for their production of large datasets …

InCHlib–interactive cluster heatmap for web applications

C Škuta, P Bartůněk, D Svozil - Journal of cheminformatics, 2014 - Springer
Background Hierarchical clustering is an exploratory data analysis method that reveals the
groups (clusters) of similar objects. The result of the hierarchical clustering is a tree structure …

Investigating the structural and functional consequences of germline single nucleotide polymorphisms located in the genes of the alternative lengthening of telomere …

NN Nila, Z Mahmud, A Paul, T Rahman, MZH Howlader… - Heliyon, 2024 - cell.com
Abstract Background The Alternative Lengthening of Telomeres (ALT) pathway represents a
non-canonical mechanism of telomere maintenance that operates independently of the …

Computational analysis of high-risk SNPs in human CHK2 gene responsible for hereditary breast cancer: A functional and structural impact

NV Badgujar, BV Tarapara, FD Shah - Plos one, 2019 - journals.plos.org
Nowadays CHK2 mutation is studied frequently in hereditary breast and ovarian cancer
patients in addition to BRCA1/BRCA2. CHK2 is a tumor suppressor gene that encodes a …

Computational analysis for the determination of deleterious nsSNPs in human MTHFR gene

M Desai, JB Chauhan - Computational biology and chemistry, 2018 - Elsevier
Methylenetetrahydrofolate reductase (MTHFR) is a key enzyme involved in folate
metabolism and plays a central role in DNA methylation and biosynthesis. MTHFR mutations …

Predicting the functional and structural consequences of nsSNPs in human methionine synthase gene using computational tools

M Desai, JB Chauhan - Systems Biology in Reproductive Medicine, 2019 - Taylor & Francis
Methionine synthase encoded by the MTR gene is one of the key enzymes involved in the
SAM (S-Adenosyl Methionine) cycle catalyzing the conversion of homocysteine to …

Computational analysis for the determination of deleterious nsSNPs in human MTHFD1 gene

M Desai, JB Chauhan - Computational biology and chemistry, 2017 - Elsevier
Single nucleotide polymorphisms (SNPs) are the most common genetic polymorphisms and
play a major role in many inherited diseases. Methylenetetrahydrofolate dehydrogenase 1 …