Activation of signaling pathways by UV radiation is a key event in the DNA damage response and initiated by different cellular processes. Here we show that non-cycling cells proficient in nucleotide excision repair (NER) initiate a rapid but transient activation of the damage response proteins p53 and H2AX; by contrast, NER-deficient cells display delayed but persistent signaling and inhibition...

Nucleotide excision repair (NER) in yeast is effected by the concerted action of a large complex of proteins. Recently, we identified a stable subcomplex containing the yeast Rad7 and Rad16 proteins. Here, we report the identification of autonomously replicating sequence binding factor 1 (ABF1) as a component of the Rad7/Rad16 NER subcomplex. Yeast ABF1 protein is encoded by an essential gene r...

Nucleotide excision repair (NER) is the most versatile DNA repair pathway for removing DNA damage caused by UV radiation and many environmental carcinogens. NER is essential for suppressing tumorigenesis in the skin, lungs and brain. Although the core NER proteins have been identified and characterized, molecular regulation of NER remains poorly understood. Here we show that ubiquitin-specific ...

Dependency-based models for the named entity recognition (NER) task have shown promising results by capturing long-distance relationships between words in a sentence. However, while existing focus on syntactic dependency entities, we are unaware of any work that considers semantic dependency. In this work, study usefulness information NER. We propose NER model is guided graphs instead trees. Th...

XPC recognizes UV-induced DNA lesions and initiates their removal by nucleotide excision repair (NER). Damage recognition in NER is tightly controlled by ubiquitin and SUMO modifications. Recent studies have shown that the SUMO-targeted ubiquitin ligase RNF111 promotes K63-linked ubiquitylation of SUMOylated XPC after DNA damage. However, the exact regulatory function of these modifications in ...

In this paper, we propose a novel kernel function for support vector machines (SVM) that can be used for sequential labeling tasks like named entity recognition (NER). Machine learning methods like support vector machines, maximum entropy, hidden Markov model and conditional random fields are the most widely used methods for implementing NER systems. The features used in machine learning algori...

BACKGROUND The Mu Ner protein is a small (74 amino acids), basic, DNA-binding protein found in phage Mu. It belongs to a class of proteins, the cro and repressor proteins, that regulate the switch from the lysogenic to the lytic state of the phage life cycle. There is no significant sequence identity between Mu Ner and the cro proteins of other phages, despite their functional similarity. In ad...

Abstract Existing research emphasises employer choice in determining the form and content of non‐union employee representation (NER) structures. This article puts forward an alternative but complementary thesis: we conceptualise NERs as ‘offer’ that employees can choose to either accept or reject, with several shades settlement between. argues matters insofar it determines likely impact sustain...

The repair of psoralen interstrand cross-links in the yeast Saccharomyces cerevisiae involves the DNA repair groups nucleotide excision repair (NER), homologous recombination (HR), and post-replication repair (PRR). In repair-proficient yeast cells cross-links induce double-strand breaks, in an NER-dependent process; the double-strand breaks are then repaired by HR. An alternate error-prone rep...