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Event extraction across multiple levels of biological organization

Sampo Pyysalo, Tomoko Ohta, Makoto Miwa, Han-Cheol Cho, Jun'ichi Tsujii, Sophia Ananiadou
2012 Computer applications in the biosciences : CABIOS  
Motivation: Event extraction using expressive structured representations has been a significant focus of recent efforts in biomedical information extraction.  ...  Results: We extend the event extraction approach to biomedical information extraction to encompass all levels of biological organization from the molecular to the whole organism.  ...  ACKNOWLEDGEMENTS We thank Xinglong Wang and Iain McKendrick for their advice in interpreting the annotation of the reference corpus and the anonymous reviewers for their many insightful comments.  ... 
doi:10.1093/bioinformatics/bts407 pmid:22962484 pmcid:PMC3436834 fatcat:4s5emaap7rawzg25nlzl2dcvvq

Unsupervised Event Graph Representation and Similarity Learning on Biomedical Literature

Giacomo Frisoni, Gianluca Moro, Giulio Carlassare, Antonella Carbonaro
2021 Sensors  
The automatic extraction of biomedical events from the scientific literature has drawn keen interest in the last several years, recognizing complex and semantically rich graphical interactions otherwise  ...  buried in texts.  ...  Conflicts of Interest: The authors declare no conflict of interest.  ... 
doi:10.3390/s22010003 pmid:35009544 pmcid:PMC8747118 fatcat:zghkmzt3wnf27cvh2p5tcvrvei

Proceedings of the 5th International Symposium on Semantic Mining in Biomedicine (SMBM 2012)

Six were accepted as full papers (out of twelve submitted in this category), four were accepted as short papers, three for demonstrations, and two as extended abstracts.  ...  SMBM 2012 brings together researchers from text and data mining in biomedicine, medical, bio-and chemoinformatics, and researchers active in biomedical ontology design and engineering, and the Semantic  ...  We also thank authors of sites listed in Table 2 for freely providing inventories of database and tool names.  ... 
doi:10.5167/uzh-64476 fatcat:7jmhh6stpjakbkdwh3vslkenru

7th European Conference on Schizophrenia Research: Time for precision medicine?

2019 European Archives of Psychiatry and Clinical Neuroscience  
The costs for publication were fully covered by delegates' payments of registration fees.  ...  Anders Breivik was convicted to 21 years in prison, the maximum sentence existing in Norway.  ...  Policy of full disclosure: None. S-20-003 Machine-learning for multi-variate data across psychosis spectrum disorders N.  ... 
doi:10.1007/s00406-019-01045-6 fatcat:4tbfk4p4yngqto7uxhrdczle54

Extracting information for biology [article]

Jasmin Saric, Universität Stuttgart, Universität Stuttgart
textual data available and in integrating the results with data derived from biomedical experiments.  ...  As a consequence these results accelerate the pace of research and development in the field of biomedicine.  ...  The genome, the gene and its parts Genome: The genome consists of the complete genetic information of an organism. This means the total set of all genes of an organism (see Lackie and Dow (2000) ).  ... 
doi:10.18419/opus-2585 fatcat:6z25jb7vpjhcjihxayyo6p7y7i


Pázmány Péter
like to thank his supervisor, Miklós Gyöngy (PhD) for the helpful and professional guidance and also thank both his supervisor and Lajos Balogh (PhD) for providing data of mice (examined in this paper  ...  ACKNOWLEDGMENT The authors are grateful to George Bourianoff (Intel Corp, Austin, TX) and for Giovanni Carlotti (University of Perugia) for motivating discussions.  ...  Used threshold type: BIN ARY . Used adaptive method: M EAN C. The threshold value T (x, y) is a mean of the n x n neighborhood of (x, y) minus c (OpenCV documentation). Binary thresholding formula.  ... 

ACNP 57th Annual Meeting: Poster Session III

2018 Neuropsychopharmacology  
Methods: We included subjects from an ongoing cohort of older adults with major depression (n = 66) that underwent 3 T brain MRI scan and comprehensive neurocognitive assessment.  ...  There is growing evidence that the biological mechanisms of depression significantly overlap with those observed during the aging process, leading to an acceleration of brain and systemic aging in depressed  ...  In parallel, we show that fentanyl alters MAVS and STING expression, activation and subcellular localization.  ... 
doi:10.1038/s41386-018-0268-5 fatcat:wiooxnisvfhovadauljiso4ie4

Abstracts from the 28th CINP World Congress of Neuropsychopharmacology, Stockholm, Sweden, 3–7 June 2012

2012 International Journal of Neuropsychopharmacology  
be linked to the higher incidence of MDD in the HIV+ population.  ...  Objective : Altered expression of neurotrophic factors has been implicated in both the pathology of human immunodeficiency virus (HIV) infection and major depressive disorder (MDD) in the brain and may  ...  Methods : We used simultaneous multi-site local field potential (LFP) recordings in urethane-anesthetized rats to assess the effects of high-frequency (HF, 130 Hz ; clinically effective), low-frequency  ... 
doi:10.1017/s1461145712000508 fatcat:ft6ipgmb45azzjxouthbqdn43i

Elements of Software Architectures-The GenSIF/GARM Model 4. 2 GARM-An Architecture Reference Model

Wilhelm Rossak, Vassilka Kirova
1996 Informatica   unpublished
We then proceed to discuss in detail the elements of our generic architecture reference model: concepts, rules, patterns and guidelines.  ...  GARM is also part of the ongoing GenSIF (Generic Systems Integration Framework) project at the New Jersey Institute of Technology.  ...  I would like to acknowledge efforts and achievements of many developers and researchers of expert systems in Korean Nuclear Society.  ... 

Dagstuhl Reports, Volume 7, Issue 6, June 2017, Complete Issue [article]

The goal is to answer queries in terms of the target ontology in a federated manner. From a practical point of view, this begs the question: where does the target ontology and the mappings come from?  ...  This is in contrast to the traditional web where advertisement fueled a lot of the growth.  ...  Our results show that despite their different subcellular localizations, STAR proteins (KHDRBS1-3, QKI) bind to a similar RNA motif in vivo.  ... 
doi:10.4230/dagrep.7.6 fatcat:5ovvse5smzhxppthq2tu6i4icm

Journal of undergraduate research, vol. 9, no. 1, Fall 2018 [article]

(:Unkn) Unknown, Colorado State University. Libraries
This year has been a blessing as I have settled into the role of editor in chief with support from those around me.  ...  As seniors graduate and pursue their future and new members join to engage in the publication process, I am reminded of the hard work, determination, and dedication every present and past JUR member has  ...  Acknowledgements We would like to thank the previous students who worked on this project, many of whom worked diligently to express LGN in E. coli with no success: Alexander Zanetti, Michael Hyde, Benjamin  ... 
doi:10.25675/10217/233607 fatcat:jiaxqthqqbfn5a4dpwtrepjo5m

1996-1997 Nova Southeastern University Center for Undergraduate Studies Catalog

1996 unpublished
We welcome you in joining in our common mission of creating the best possible educational setting.  ...  other disciplines, and to operate in a culturally diverse milieu.  ...  (CCS ary school. Problems in the selection of SCIS 2410.  ... 

Reverse engineering of gene regulatory networks governing cell-cell communication in the microenvironment of pancreatic cancer

Zbigniew Rogon-Lamparski
pathogen-recognition.  ...  This, previously mentioned, overall lack of a permanent switch in TC may mean that these interactions are insufficient to drive TC in the direction of a specific cell-fate decision.  ... 
doi:10.11588/heidok.00012523 fatcat:hncri4zh5vf4nl7kkvef3ezsum