Nucleotide excision repair (NER) is a multistep process that recognizes and eliminates a wide spectrum of damage causing significant distortions in the DNA structure, such as UV-induced damage and bulky chemical adducts. The consequences of defective NER are apparent in the clinical symptoms of individuals affected by three disorders associated with reduced NER capacities: xeroderma pigmentosum...

Nucleotide excision repair (NER) plays an essential role in many organisms across life domains to preserve and faithfully transmit DNA to the next generation. In humans, NER is essential to prevent DNA damage-induced mutation accumulation and cell death leading to cancer and aging. NER is a versatile DNA repair pathway that repairs many types of DNA damage which distort the DNA helix, such as t...

Translated bi-texts contain complementary language cues, and previous work on Named Entity Recognition (NER) has demonstrated improvements in performance over monolingual taggers by promoting agreement of tagging decisions between the two languages. However, most previous approaches to bilingual tagging assume word alignments are given as fixed input, which can cause cascading errors. We observ...

Named entity recognition, and other information extraction tasks, frequently use linguistic features such as part of speech tags or chunkings. For languages where word boundaries are not readily identified in text, word segmentation is a key first step to generating features for an NER system. While using word boundary tags as features are helpful, the signals that aid in identifying these boun...

The eukaryotic cell encounters more than one million various kinds of DNA lesions per day. The nucleotide excision repair (NER) pathway is one of the most important repair mechanisms that removes a wide spectrum of different DNA lesions. NER operates through two sub pathways: global genome repair (GGR) and transcription-coupled repair (TCR). GGR repairs the DNA damage throughout the entire geno...

The p38 MAPK is a family of serine/threonine protein kinases that play important roles in cellular responses to external stress signals, e.g. UV irradiation. To assess the role of p38 MAPK pathway in nucleotide excision repair (NER), the most versatile DNA repair pathway, we determined the efficiency of NER in cells treated with p38 MAPK inhibitor SB203580 and found that p38 MAPK is required fo...

2 Tagging 5 2.1 PoS tagging . . . . . . . . . . . . . . . . . . . . . . . . . . . . 5 2.1.1 Features for PoS Tagging . . . . . . . . . . . . . . . . 6 2.1.2 PoS Tagging Results for Different Languages . . . . . 7 2.2 Named Entity Recognition . . . . . . . . . . . . . . . . . . . . 8 2.2.1 One-step vs Two-step Classification . . . . . . . . . . 8 2.2.2 Features for NER . . . . . . . . . . . . . ...

This paper presents a method for the named entity recognition (NER) of speech data that uses automatic speech recognition (ASR) confidence as a feature that indicates whether each word is correctly recognized. An NER model is trained using ASR results with named entity (NE) labels to include an ASR confidence feature as well as corresponding transcriptions with NE labels. Experiments using supp...

In this paper, we propose a method for referring to the real world to improve named entity recognition (NER) specialized for a domain. Our method adds a stacked autoencoder to a text-based deep neural network for NER. We first train the stacked auto-encoder only from the real world information, then the entire deep neural network from sentences annotated with NEs and accompanied by real world i...