Results 121 to 130 of about 4,572,181 (334)

Local alignment of two-base encoded DNA sequence

BMC Bioinformatics, 2009
Background DNA sequence comparison is based on optimal local alignment of two sequences using a similarity score. However, some new DNA sequencing technologies do not directly measure the base sequence, but rather an encoded form, such as the two-base ...
Merriman Barry, Homer Nils, Nelson Stanley F   +2 more
doaj   +1 more source

MARS: improving multiple circular sequence alignment using refined sequences

BMC Genomics, 2017
A fundamental assumption of all widely-used multiple sequence alignment techniques is that the left- and right-most positions of the input sequences are relevant to the alignment.
Lorraine A. K. Ayad, S. Pissis
semanticscholar   +1 more source

Exact asymptotic results for the Bernoulli matching model of sequence alignment [PDF]

, 2005
Satya N. Majumdar, Sergei Nechaev
openalex   +1 more source

Predictors of response and rational combinations for the novel MCL‐1 inhibitor MIK665 in acute myeloid leukemia

Molecular Oncology, EarlyView.
This study characterizes the responses of primary acute myeloid leukemia (AML) patient samples to the MCL‐1 inhibitor MIK665. The results revealed that monocytic differentiation is associated with MIK665 sensitivity. Conversely, elevated ABCB1 expression is a potential biomarker of resistance to the treatment, which can be overcome by the combination ...
Joseph Saad, Rhiannon Newman, Elmira Khabusheva, Sofia Aakko, Eric Durand, Mahesh Tambe, Heikki Kuusanmäki, Alun Parsons, Juho J. Miettinen, Komal Kumar Javarappa, Ezgi June Olgac, Nemo Ikonen, Mika Kontro, Kimmo Porkka, Heiko Maacke, Janghee Woo, Ensar Halilovic, Caroline A. Heckman   +17 more
wiley   +1 more source

Feasibility of a ctDNA multigenic panel for non‐small‐cell lung cancer early detection and disease surveillance

Molecular Oncology, EarlyView.
Plasma‐based detection of actionable mutations is a promising approach in lung cancer management. Analysis of ctDNA with a multigene NGS panel identified TP53, KRAS, and EGFR as the most frequently altered, with TP53 and KRAS in treatment‐naïve patients and TP53 and EGFR in previously treated patients.
Giovanna Maria Stanfoca Casagrande, Marcela de Oliveira Silva, Mariana Bisarro dos Reis, Rodrigo de Oliveira Cavagna, Luciane Sussuchi, Icaro Alves Pinto, Natalia Zampieri Pontes, Rodrigo Sampaio Chiarantano, Flavio Augusto Ferreira da Silva, Pedro de Marchi, Letícia Ferro Leal, Rui M. Reis   +11 more
wiley   +1 more source

Aggressive prostate cancer is associated with pericyte dysfunction

Molecular Oncology, EarlyView.
Tumor‐produced TGF‐β drives pericyte dysfunction in prostate cancer. This dysfunction is characterized by downregulation of some canonical pericyte markers (i.e., DES, CSPG4, and ACTA2) while maintaining the expression of others (i.e., PDGFRB, NOTCH3, and RGS5).
Anabel Martinez‐Romero, Ane Martinez‐Larrinaga, Joaquim Grego‐Bessa, Saioa Garcia‐Longarte, Hielke van Splunder, Ianire Astobiza, Amaia Ercilla, Laura Bozal‐Basterra, Isabel Mendizabal, Pilar Villacampa, Arkaitz Carracedo, Mariona Graupera   +11 more
wiley   +1 more source

Analyzing at Scale the Effects of Optimal Global Sequence Alignment on Sequence Similarity Using a GPU-Optimized Implementation of the Needleman-Wunsch Algorithm and the SBERT Module

Engineering Proceedings
Global sequence alignment remains a fundamental technique in bioinformatics, yet its large-scale application is often limited by computational demands.
Emilia Pardo, Valko Milev, Ventsislav Kolev, Maria Marinova   +3 more
doaj   +1 more source

webPRANK: a phylogeny-aware multiple sequence aligner with interactive alignment browser

BMC Bioinformatics, 2010
Background Phylogeny-aware progressive alignment has been found to perform well in phylogenetic alignment benchmarks and to produce superior alignments for the inference of selection on codon sequences.
Goldman Nick, Löytynoja Ari
doaj   +1 more source

Edlib: a C/C++ library for fast, exact sequence alignment using edit distance

bioRxiv, 2016
We present Edlib, an open-source C/C++ library for exact pairwise sequence alignment using edit distance. We compare Edlib to other libraries and show that it is the fastest while not lacking in functionality, and can also easily handle very large ...
Martin Sosic, M. Šikić
semanticscholar   +1 more source

Refining pairwise sequence alignments of membrane proteins by the incorporation of anchors [PDF]

, 2020
René Staritzbichler, Edoardo Sarti, Emily Yaklich, Antoniya A. Aleksandrova, Markus Stamm, K. Khafizov, Lucy R. Forrest   +6 more
openalex   +1 more source