Match!
IEEE/ACM Transactions on Computational Biology and Bioinformatics
IF
2.90
Papers
2148
Papers 2121
1 page of 213 pages (2,121 results)
Newest
#1Fanchang Hao (SDU: Shandong University)H-Index: 2
#2Melvin ZhangH-Index: 4
Last.Hon Wai Leong (NUS: National University of Singapore)H-Index: 21
view all 3 authors...
We consider the problem of sorting signed permutations by reversals, transpositions, transreversals, and block-interchanges and give a 2-approximation scheme, called the GSB (Genome Sorting by Bridges) scheme. Our result extends 2-approximation algorithm of He and Chen [12] that allowed only reversals and block-interchanges, and also the 1.5 approximation algorithm of Hartman and Sharan [11] that allowed only transreversals and transpositions. We prove this result by introducing three bridge str...
#1Je-Keun Rhee (Catholic University of Korea)H-Index: 11
#2Jinseon Yoo (Catholic University of Korea)H-Index: 1
Last.Tae-Min Kim (Catholic University of Korea)H-Index: 26
view all 7 authors...
Mutation hotspots are either solitary amino acid residues or stretches of amino acids that show elevated mutation frequency in cancer-related genes, but their prevalence and biological relevance are not completely understood. Here, we developed a Smith-Waterman algorithm-based mutation hotspot discovery method, MutClustSW, to identify mutation hotspots of either single or clustered amino acid residues. We identified 181 missense mutation hotspots from COSMIC and TCGA mutation databases. In addit...
#1SeongRyeol Moon (Gachon University)H-Index: 1
#2Curtis BalchH-Index: 17
Last.Seungyoon Nam (Gachon University)H-Index: 16
view all 6 authors...
The “guardian of the genome,” TP53, is one of the most frequently mutated genes of all cancers. Despite the important biological roles of TP53, the clinical relevance of TP53 mutations, in gastric cancer (GC), remains largely unknown. Here, we systematically assessed clinical relevance, in terms of TP53 mutation positions, finding substantial variability. Thus, we hypothesized that the position of the TP53 mutation might affect clinical outcomes in GC. We systematically inspected missense mutati...
#1Célia Biane (Université Paris-Saclay)H-Index: 2
#2Franck Delaplace (Université Paris-Saclay)H-Index: 8
Complex diseases such as Cancer or Alzheimer's are caused by multiple molecular perturbations leading to pathological cellular behavior. However, the identification of disease-induced molecular perturbations and subsequent development of efficient therapies are challenged by the complexity of the genotype-phenotype relationship. Accordingly, a key issue is to develop frameworks relating molecular perturbations and drug effects to their consequences on cellular phenotypes. Such framework would ai...
Median tree inference under path-difference metrics has shown great promise for large-scale phylogeny estimation. Similar to these metrics is the family of cophenetic metrics that originates from a classic dendrogram comparison method introduced more than 50 years ago. Despite the appeal of this family of metrics, the problem of computing median trees under cophenetic metrics has not been analyzed. Like other standard median tree problems relevant in practice, as we show here, this problem is al...
#1Neda Jahanshad (SC: University of Southern California)H-Index: 42
#2Joshua Faskowitz (SC: University of Southern California)
Last.Paul M. Thompson (SC: University of Southern California)H-Index: 141
view all 25 authors...
Genome-wide association studies (GWAS) link full genome data to a handful of traits. However, in neuroimaging studies, there is an almost unlimited number of traits that can be extracted for full image-wide big data analyses. Large populations are needed to achieve the necessary power to detect statistically significant effects, emphasizing the need to pool data across multiple studies. Neuroimaging consortia, e.g., ENIGMA and CHARGE, are now analyzing MRI data from over 30,000 individuals. Dist...
#1Donghe LiH-Index: 1
#2Wonji KimH-Index: 1
Last.Sungho Won (SNU: Seoul National University)H-Index: 17
view all 11 authors...
Insertions and deletions (INDELs) comprise a significant proportion of human genetic variation, and recent papers have revealed that many human diseases may be attributable to INDELs. With the development of next-generation sequencing (NGS) technology, many statistical/computational tools have been developed for calling INDELs. However, there are differences among those tools, and comparisons among them have been limited. In order to better understand these inter-tool differences, five popular a...
#1Yanbo Wang (SJTU: Shanghai Jiao Tong University)H-Index: 2
#2Quan Liu (SJTU: Shanghai Jiao Tong University)H-Index: 1
Last.Bo Yuan (SJTU: Shanghai Jiao Tong University)H-Index: 16
view all 4 authors...
Cancer is a heterogeneous disease, thus one of the central problems is how to dissect the resulting complex phenotypes in terms of their biological building blocks. Computationally, this is to represent and interpret high dimensional observations through a structural and conceptual abstraction into the most influential determinants underlying the problem. The working hypothesis of this report is to consider gene interaction to be largely responsible for the manifestation of complex cancer phenot...
Automated protein function prediction is a challenging problem with distinctive features, such as the hierarchical organization of protein functions and the scarcity of annotated proteins for most biological functions. We propose a multitask learning algorithm addressing both issues. Unlike standard multitask algorithms, which use task (protein functions) similarity information as a bias to speed up learning, we show that dissimilarity information enforces separation of rare class labels from fr...
#1Shimpei Nishida (Waseda University)H-Index: 1
#2Shun Sakuraba (UTokyo: University of Tokyo)H-Index: 9
Last.Michiaki Hamada (Waseda University)H-Index: 16
view all 4 authors...
Computational RNA secondary structure prediction depends on a large number of nearest-neighbor free-energy parameters, including 10 parameters for Watson–Crick stacked base pairs that were estimated from experimental measurements of the free energies of 90 RNA duplexes. These experimental data are provided by time-consuming and cost-intensive experiments. In contrast, various modified nucleotides in RNAs, which would affect not only their structures but also functions, have been found, and rapid...
12345678910