With the increasing popularity of microblogging services, new research challenges arise in the area of text processing. In this paper, we hypothesize that already existing services for Named Entity Recognition (NER), or a combination thereof, perform well on microposts, despite the fact that these NER services have been developed for processing long-form text documents that are well-structured ...

As a blueprint for genetic information, the structural and functional integrity of DNA must be maintained during cell division and gamete formation. However, this fundamental principle is threatened continuously by the vulnerability of DNA itself and/or by assaults from endogenously produced agents, such as reactive oxygen species and other metabolites, as well as various environmental agents i...

The field of Spatial Humanities has advanced substantially in the past years. The identification and extraction of toponyms and spatial information mentioned in historical text collections has allowed its use in innovative ways, making possible the application of spatial analysis and the mapping of these places with geographic information systems. For instance, automated place name identificati...

FEN-1 and XPG are members of the FEN-1 family of structure-specific nucleases, which share a conserved active site. FEN-1 plays a central role in DNA replication, whereas XPG is involved in nucleotide excision repair (NER). Both FEN-1 and XPG are active on flap structures, but only XPG cleaves bubble substrates. The spacer region of XPG is dispensable for nuclease activity on flap substrates bu...

The Rad23/Rad4 nucleotide excision repair (NER) protein complex functions at an early stage of the NER reaction, possibly promoting the recognition of damaged DNA. Here we show that Rad4 protein is ubiquitinated and degraded in response to ultraviolet (UV) radiation, and identify a novel cullin-based E3 ubiquitin ligase required for this process. We also show that this novel ubiquitin ligase is...

Transcription/repair factor IIH (TFIIH) is essential for RNA polymerase II transcription and nucleotide excision repair (NER). This multi-subunit complex consists of ten polypeptides, including the recently identified small 8-kDa trichothiodystrophy group A (TTDA)/ hTFB5 protein. Patients belonging to the rare neurodevelopmental repair syndrome TTD-A carry inactivating mutations in the TTDA/hTF...

bstract—Patients with the rare genetic disorders, xeroerma pigmentosum (XP), trichothiodystrophy (TTD) and ockayne syndrome (CS) have defects in DNA nucleotide xcision repair (NER). The NER pathway involves at least 28 enes. Three NER genes are also part of the basal transcripion factor, TFIIH. Mutations in 11 NER genes have been ssociated with clinical diseases with at least eight overlaping p...

Chromatin structure is known to be a barrier to DNA repair and a large number of studies have now identified various factors that modify histones and remodel nucleosomes to facilitate repair. In response to ultraviolet (UV) radiation several histones are acetylated and this enhances the repair of DNA photoproducts by the nucleotide excision repair (NER) pathway. However, the molecular mechanism...

Extracting named entities in text and linking extracted names to a given knowledge base are fundamental tasks in applications for text understanding. Existing systems typically run a named entity recognition (NER) model to extract entity names first, then run an entity linking model to link extracted names to a knowledge base. NER and linking models are usually trained separately, and the mutua...

Nucleotide excision repair (NER) is one of several DNA repair pathways that are universal throughout phylogeny. NER has a broad substrate specificity and is capable of removing several classes of lesions to the DNA, including those that accumulate upon exposure to UV radiation. The loss of this activity in NER-defective mutants gives rise to characteristic sensitivities to UV that, in humans, i...