Results 141 to 150 of about 38,188 (290)

Approximate Circular Pattern Matching under Edit Distance

CoRR
In the $k$-Edit Circular Pattern Matching ($k$-Edit CPM) problem, we are given a length-$n$ text $T$, a length-$m$ pattern $P$, and a positive integer threshold $k$, and we are to report all starting positions of the substrings of $T$ that are at edit distance at most $k$ from some cyclic rotation of $P$.
P. Charalampopoulos (Panagiotis), S. Pissis (Solon), J. Radoszewski (Jakub), W. Rytter (Wojciech), T. Waleń (Tomasz), W.P. Zuba (Wiktor)   +5 more
openaire   +4 more sources

Chameleon sequences reveal structural effects in proteins representing micelle‐like distribution of hydrophobicity

FEBS Open Bio, EarlyView.
Amino acids sequence of two different proteins with the same sequence (chameleon sequence—black boxes) represent in 3D structure of the proteins different secondary structures: HHHH—helical and BBB—Beta‐structural. The chains folded in water environment adopt different III‐order structures in which the chameleon fragments appear to adopt similar status
Irena Roterman, Katarzyna Stapor, Leszek Konieczny, Krzysztof Gądek, Piotr Nowakowski   +4 more
wiley   +1 more source

Approximate String Matching with Gaps

, 2004
In this paper we consider several new versions of approximate string matching with gaps. The main characteristic of these new versions is the existence of gaps in the matching of a given pattern in a text.
Cedex France, Maxime Crochemore, Athanasios Tsakalidis, Kostas Tsichlas, Costas Iliopoulos, Université De Marne-la-vallée, Christos Makris   +6 more
core  

Development of human monoclonal antibodies against TARM1 by yeast display

FEBS Open Bio, EarlyView.
Human monoclonal antibodies against TARM1 are generated by yeast display‐guided selection. These antibodies bind to soluble and cell‐surface forms of TARM1. Also, these antibodies exhibit agonistic activity in the NFAT‐GFP reporter assay, indicating that TARM1 signaling can be functionally modulated by antibodies and suggesting TARM1 as a potential ...
Rikio Yabe, Mayumi Saeki, Masaaki Hashiguchi, Sayaka Ono, Kazuhisa Aoki, Hidetaka Tanno   +5 more
wiley   +1 more source

Approximate string matching with stuck address bits

, 2011
A string S∈Σm can be viewed as a set of pairs {(si,i)∣si∈S,i∈{0,…,m−1}}. We follow the recent work on pattern matching with address errors and consider approximate pattern matching problems arising from the setting where errors are introduced to the ...
Amir, Amihood, Avivit Levy, Ely Porat, Estrella Eisenberg, Porat, Ely, Amihood Amir, Eisenberg, Estrella, Keller, Orgad, Levy, Avivit, Orgad Keller   +9 more
core   +1 more source

Analysing the significance of small conformational changes and low occupancy states in serial crystallographic data

FEBS Open Bio, EarlyView.
This protocol paper outlines methods to establish the success of a time‐resolved serial crystallographic experiment, by means of statistical analysis of timepoint data in reciprocal space and models in real space. We show how to amplify the signal from excited states to visualise structural changes in successful experiments.
Jake Hill, Yelyzaveta Pulnova, Elke De Zitter, Helen M. Ginn, Briony A. Yorke   +4 more
wiley   +1 more source

Hardware Accelerators for Regular Expression Matching and Approximate String Matching [PDF]

, 2009
This paper introduces hardware accelerators for regular expression matching and approximate string matching. The hardware for regular expression matching accepts a subclass of regular expressions, and achieves a high throughput string matching for a wide
Mikami, Sadatoshi, Nagayama, Shinobu, Wakabayashi, Shin'ichi, Kawanaka, Yosuke   +3 more
core  

Faster approximate pattern matching in compressed repetitive texts

, 2011
Motivated by the imminent growth of massive, highly redundant genomic databases we study the problem of compressing a string database while simultaneously supporting fast random access, substring extraction and pattern matching to the underlying string(s)
Pawel Gawrychowski, Simon J. Puglisi, Paweł Gawrychowski, Travis Gagie   +3 more
core   +1 more source

Matrix metalloproteinase‐9 regulates cell adhesion and membrane protrusive activity of ovarian cancer cells

FEBS Open Bio, EarlyView.
Matrix metalloproteinase‐9 (MMP9) drives ovarian cancer progression. Using MMP9‐null cells (M9‐KO) created from ovarian cancer cells, we found MMP9 loss did not block Epidermal Growth Factor (EGF)‐driven E‐cadherin dissolution or EMT but delayed and reduced EGF‐driven membrane protrusions. Transient MMP9 re‐expression drove membrane protrusion.
Claire Strauel, Sam Bennett, Natalie Ehlinger, Nelson Cook, Katelyn Marvin, Caleb L. Lines, Sam Reyes, Brooke Kirby, Shawn M. Ellerbroek   +8 more
wiley   +1 more source

Decreased cold‐sensing function of the transient receptor potential channel TRPM8 from tailed amphibians

FEBS Open Bio, EarlyView.
Despite frogs avoiding low temperatures, examination of four salamander species revealed that none avoided cold and all possessed cold tolerance. Functional analysis of TRPM8, a cold sensor, showed that all salamander TRPM8s had lost their cold sensitivity.
Tadahiro Sawao, Daiki Kobayashi, Shogo Hori, Osamu Saitoh   +3 more
wiley   +1 more source