相关论文: Waiting for regulatory sequences to appear

Time delays, modelling the process of intracellular gene expression, have been shown to have important impacts on the dynamics of pattern formation in reaction-diffusion systems. In particular, past work has shown that such time delays can…

A correlation is a binary vector that encodes all possible positions of overlaps of two words, where an overlap for an ordered pair of words (u,v) occurs if a suffix of word u matches a prefix of word v. As multiple pairs can have the same…

We focus on the statistics of word occurrences and of the waiting times between such occurrences in Blogs. Due to the heterogeneity of words' frequencies, the empirical analysis is performed by studying classes of "frequently-equivalent"…

For human children as well as machine learning systems, a key challenge in learning a word is linking the word to the visual phenomena it describes. We explore this aspect of word learning by using the performance of computer vision systems…

For any synchronizing $n$-state deterministic automaton, \v{C}ern\'{y} conjectures the existence of a synchronizing word of length at most $(n-1)^2$. We prove that there exists a synchronizing word of length at most $2n^2 - 7n + 7$ for…

The syntactic structure of a sentence can be represented as a graph, where vertices are words and edges indicate syntactic dependencies between them. In this setting, the distance between two linked words is defined as the difference…

We show that the predictability of letters in written English texts depends strongly on their position in the word. The first letters are usually the least easy to predict. This agrees with the intuitive notion that words are well defined…

The dependence of the frequency distributions due to multiple meanings of words in a text is investigated by deleting letters. By coding the words with fewer letters the number of meanings per coded word increases. This increase is measured…

Given two sequences over a finite alphabet $\mathcal{L}$, the $D_2$ statistic is the number of $m$-letter word matches between the two sequences. This statistic is used in bioinformatics for expressed sequence tag database searches. Here we…

In the Yule-Simon process, selection of words follows the preferential attachment mechanism, resulting in the power-law growth in the cumulative number of individual word occurrences. This is derived using mean-field approximation, assuming…

In 2011, Fici and Lipt\'ak introduced prefix normal words. A binary word is prefix normal if it has no factor (substring) that contains more occurrences of the letter 1 than the prefix of the same length. Among the open problems regarding…

Zipf's law of abbreviation, namely the tendency of more frequent words to be shorter, has been viewed as a manifestation of compression, i.e. the minimization of the length of forms -- a universal principle of natural communication.…

Genomic expression depends critically both on the ability of regulatory proteins to locate specific target sites on a DNA within seconds and on the formation of long lived (many minutes) complexes between these proteins and the DNA.…

Since the completion of the human genome sequencing project in 2001, significant progress has been made in areas such as gene regulation editing and protein structure prediction. However, given the vast amount of genomic data, the segments…

This is the first scientific article since 2010 counting the words which are effective and permanent federal law in the United States (US) Code. The latest version of the US Code --published in 2025-- is the largest since 1991, encompassing…

Despite the recent popularity of word embedding methods, there is only a small body of work exploring the limitations of these representations. In this paper, we consider one aspect of embedding spaces, namely their stability. We show that…

The hairpin completion is an operation on formal languages which is inspired by the hairpin formation in biochemistry. Hairpin formations occur naturally within DNA-computing. It has been known that the hairpin completion of a regular…

Zipf's law has been found in many human-related fields, including language, where the frequency of a word is persistently found as a power law function of its frequency rank, known as Zipf's law. However, there is much dispute whether it is…

Define a building blocks set to be a collection of n cubes (each with six sides) where each side is assigned one letter and one color from a palette of m colors. We propose a novel problem of assigning letters and colors to each face so as…

This paper presents a probabilistic approach for DNA sequence analysis. A DNA sequence consists of an arrangement of the four nucleotides A, C, T and G and different representation schemes are presented according to a probability measure…