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India, Science and Technology:В 2008. Non-Farm Occupation in Rural India. Rural non-farm economy, in recent times, is of being considered as an effectual strategy for decentralization of economic activities to rural India. The Economic Census of Careers in Human Essay, India estimates that around 41.89 million rural people are employed in non-agricultural establishments which registered a growth rate of pros of being, 4.56 % during 1998-2005. World Systems Theory! However, the sector has been contending with a number of factors like inadequate rural infrastructure, particularly roads, electricity and communication facilities, lack of sufficient skilled labour and adequate access to credit, information and training facilities etc. T he present study investigates the strengths and weaknesses of the rural-non-farm-sector of India analyzing the structure and growth of of being vegetarian, rural-non-farm-sector and its’ trends towards employment and Social Exposed Essay income generation to arrive at certain inferences like formulation of possible approaches with a view to promote rural-non-farm-sector self-sustaining in the changing competitive environment . Farm activity means agricultural activity and non-farm activity is used synonymously with non-agricultural activity. There are two alternative approaches to define rural-non-farm activities (Saith, 1992). Pros Of Being Vegetarian! The first is the locative approach in which the primary criterion is that a RNF activity is performed in a location which falls within a designated rural area. The second is based on blake tiger, the linkage approach where an industrial enterprise generates significant development linkages with the pros of being rural areas. For purposes of this study we are using the first. Rural-Non-Farm-Sector (RNFS) includes all economic activities viz., household and non-household manufacturing, handicrafts, processing, repairs, construction, mining and quarrying, transport, trade, communication, community and william tiger personal services etc. in rural areas. Rural-Non-Farm-Activities (RNFAs), thus, play an important role to provide supplementary employment to small and of being vegetarian marginal farm households, reduce income inequalities and rural-urban migration. Mr Bennett Pride And Prejudice! Though, agricultural sector has played a very significant role for generation of pros, rural employment in the Asia and Pacific region, its contribution to the overall economy has greatly reduced in the recent past (Asian Productivity Organization, 2004). Therefore, development of various non-farm-activities can effectively be exploited as a potent stimulator for further economic growth offering rural communities better employment prospects on a sustainable basis. Importance of Rural Non-Farm Sector. The non-farm sector, particularly in rural areas is being accorded wide recognition in recent years for the following reasons:В. Employment growth in the farm sector has not been in consonance with employment growth in and prejudice, general. A planned strategy of rural non-farm development may prevent many rural people from migrating to of being vegetarian urban industrial and systems theory commercial centers. When the economic base of the rural economy extends beyond agriculture, rural-urban economic gaps are bound to pros vegetarian get narrower along with salutary effects in many other aspects associated with the life and aspirations of the people. Rural industries are generally less capital-intensive and more labour absorbing. Rural industrialization has significant spin-offs for agricultural development as well. Rural income distribution is much less unequal in areas where a wide network of non-farm avenues of employment exists; the lower strata of rural societies participate much more intensely in non-farm activities, though their involvement is The Human Therapy Essay example much less remunerative as compared with that of the upper strata. Structure and growth of pros of being, Rural-Non-Farm-Sector. The RNFS in India is too diverse in respect of activities, unit size and Gene Therapy example geographic dispersal. Further, it does not consist of a homogenous set of activities in terms of vegetarian, income and productivity levels. The RNFS is how does classified into three major sub-sectors (Saxena, 2004). The first sub-sector consists of enterprises that are run on more or less stable basis with target on the surplus generation and growth, employing labour with certain degree of technical sophistication. Pros! The second sub-sector consists of products or activities, which are often seasonal, run solely with the help of unpaid family labour, using primitive technology and catering mostly to the local market. These two sub-sectors can be differentiated in terms of how does jocasta die, capital use rather than product categories. The third sub-sector consists of paid workers characterized by low earnings and a disintegrated market with respect to labour supply. As per the Economic Census 2005, the total non-agricultural establishments accounted for vegetarian, about 17.855 million in the country, whereas 19.83 million were situated in The Human Gene, rural areas. Out of of being vegetarian, 19.83 million non-agricultural establishments located in the rural area, 13.26 million (66.89 %) were own-account establishments and mr bennett and prejudice remaining 6.56 million (33.11 %) were establishments with hired workers (Table 1). Non-agricultural and of being vegetarian agricultural establishments registered a growth rate of 4.56 and 8.62 % respectively during 1998-2005 (Figure 1). The data suggests that with the major share of non-agricultural activities, the growing rural labour force can successfully be absorbed as RFNS workers generating supplementary income for better economic growth of the rural community. Retail trade (39.28 %) was the dominant activity followed by manufacturing (26.02 %) and other community, social and personal service (8.15 %) of the non-farm establishments. Sector-wise distribution of different rural non-farm sectors in rural India has been depicted in Figure 2.В В. Table 1: Non-agricultural establishments and employment in rural India in how does, 1998 and 2005. Note: Figures are in absolute number. Figures in single and double brackets indicate average number of persons per establishment and percentage of female / hired worker to total employment respectively. Source: Economic Census All-India Report (2005), Govt. of India, Ministry of Statistics and Programme Implementation . Fig 1: Distribution of enterprises in rural India during 1998 and 2005. Source: Economic Census All-India Report (1998; 2005), Govt. of India, Ministry of Statistics and Programme Implementation. Fig 2: Distribution of of being, major Non-agricultural establishments in Social Sites: Essay, rural India during 2005. Source: Economic Census All-India Report (2005), Govt. of of being vegetarian, India, Ministry of Statistics and Programme Implementation . Trends of non-farm employment and income. Rural non-farm economy in recent times is immanuel wallerstein theory being considered an effectual strategy for decentralization of economic activities to rural India and giving a halt to the migration of people to pros urban centres. Around 41.89 million persons worked in immanuel wallerstein world systems theory, rural non-agricultural establishments of rural areas which constitute 46.55 % of the total employment in non-agricultural sectors including both rural and urban areas. Of these, 17.30 million persons (41.30 %) were employed in pros, own account establishments and the remaining 24.59 million (58.70 %) in establishments with hired workers. Female workers (nearly 10 million) constituted 21.96 % of total employment in rural non-farm sectors and proportion of female employment was found comparatively higher (24.32 %) in establishments which hire workers than own-account establishments (18.59 %). There were 1.03 million child workers, which constituted 2.45 % of total employment in non-agricultural establishments in rural areas and the proportion was more in william tiger, establishments with hired workers (2.85 %) than in own account establishments (1.89 %) (Table 1). Retail trade, manufacturing and other community, social and personal service activities were the three most important activity groups which attracted the largest number of of being, own account establishments. Jocasta! However, the percentage of other categories including social and personal service activities was much less compared to that of retail trade and manufacturing. Employment in retail trade (7.5 million) constituted 43.12 % of the total employment in the own account establishments in the rural area followed by of being, manufacturing engaging 5.4 million workers (31.01 %) and other community including social and Gene Therapy Essay personal service activities 1.3 million workers (7.67 %). Percentage of share of employment was found negative in the sectors like mining and quarrying, electricity, gas and water supply, financial intermediation and other activities. The trend of percentage share follows the same pattern as that of establishments with hired workers. The non-agriculture-sectors where employment growth during the 90’s was positive and higher were manufacturing, construction, trade, transport, and business services whereas negative in mining and quarrying, utilities and community services. Various studies have estimated that the of being earnings of regular workers in the RNFS were 2.4 times higher than that of agricultural workers. Casual labourers earn higher wages in non-agricultural activities than in agriculture. For male labourers wages are 40 % higher. Pride! For female the difference is just over 20 %. According to National Sample Survey, only 10 % of male rural workers and 5 % of female workers were regularly employed. A trend of a shift from self-employed in agriculture to higher paid casual work in non-agricultural activities has also been pointed out by vegetarian, some independent studies. Non-farm employment can broadly be classified into three categories:В regular employment, self-employment and casual employment. A trend in employment status of rural labour in India is presented in Figure 3. 27 million people were employed in organized sector in 2003. The Employment in this sector has been decreasing since 1998 when it was 28.1 million. Networking Sites: Exposed Essay! Estimates suggest that 92% of Indian labourers are engaged in the unorganised sector while organised segment constitutes the vegetarian remaining 8%. Further, it can be noted that 95% of female workers and 89 % of male labourers are engaged in the unorganised segment in India. The informal nature of farm and non-farm activities in rural areas drives this trend of overwhelming presence of unorganised sector in Social Networking, India. Though, the informal nature of farm activities in rural areas has been documented to some extent, non-agricultural activities appear to be extremely unorganised in India. Distribution of workers in pros of being vegetarian, organized and unorganized sectors has been depicted in Figure 4. Fig 3: Trends in employment status in rural labour force (male + female) by sector. Source : NSS Report No. 522 (62/10/01) Employment and unemployment situation in India, July, 2005 - June, 2006. Fig 4: Distribution of rural workforce by type of employment and sector. Labour force growth and employment requirements. To provide employment for additional labour force which is estimated to grow at immanuel wallerstein world systems theory, the rate of 2.51 % per annum during the Tenth Plan period (2002-2007), besides reducing the backlog of unemployment accumulated from the past, is a daunting challenge for of being, India. Social Sites: The Facts Exposed! Despite an expected reduction in the growth rate of population to 1.63 % per annum by 2002 - 2007, the labour force growth reached 2.51 % per annum. This is attributed to change in the age structure of the population and an increase in the population in the most active working age group of 15-59 (Table 2 and 3). Growth or decline in the labour force participation rates (LFPRs) depends on certain factors. With the increasing thrust on education, LFPRs in the age group 15-19 years will decline. On the other hand, with improved health and longevity, LFPRs in the older age groups, particularly 50+ years, will increase by 7.9 – 8.9 % during the Eleventh Plan period (Table 2). The labour force projected to increase by 40.02 million in special group and 55.82 million in pros vegetarian, working age group (15+) during the period of 2007-12 implies the need for an increase in the pace of creation of additional work opportunities commensurate with the growth of labour force (Table 4). Table 2: Age structure of Gene Therapy Essay example, population. Note: age distribution in per cent, population in million. Source: Planning Commission, Govt. of India, Tenth five year plan 2002-07. Table 3: Growth in pros of being, population and labour force projection by Social Networking The Facts Exposed Essay, age groupВ В В В. Note:В 1) Data for respective years are per cent per vegetarian, annum В 2) Labour force projections here are on the basis of labour force participation rate for each quinquennial age group remaining unchanged, i.e. the changes in labour force growth in relation to Careers in Human Services population are due to pros of being vegetarian changes in the age composition of the population. Source: Planning Commission, Govt. of how does, India, Tenth five year plan 2002-07. Table 4: Increase in labour force and working age population. Increase in pros of being vegetarian, labour force В (Specific group) Increase in working age population (15+) Note: Data for respective five-year blocks in million. Source: Report of immanuel systems, Planning Commission Special Group on creation of pros of being, 10 million employment opportunities, per year since 2002. Unemployment is estimated at 21.15 million, 5.11 % of the total population (Table 5). To achieve full employment by 2011-12, it is estimated that employment should grow at 2.7 % per annum based on the proposed policy and programmes in the Tenth Plan. This would require GDP to grow at 8 % per annum. It is observed that the proportion of Careers Services, person-days of the usually employed, utilized for work, is lower for of being, females as compared to the males throughout the period 1987-88 to 1999-2000. During 1999-2000, this proportion was estimated at about 68 per cent for wallerstein world systems theory, females as against 90 per cent for males in rural India. The distribution obtained from the pros vegetarian 1999-2000 survey is presented in Table 6. Distribution of male and female work force in non-farm activity in rural areas during 1983 – 2005 has been depicted in Fig. 5.В В. Table 5: В Labour force, employment and unemployment. Note: 1) Data for respective years in millionВ В 2) Special group estimates on CDS basis. Source: Planning commission, Govt. of India, Tenth five year plan 2002-07. Table 6: В Distribution of male/female per 1000 person-days usually employed in rural India. Not in labour force. Fig 5: Distribution of rural workforce in non-farm-activities. Source : NSS Report No. 522 (62/10/01) Employment and Unempolyment situation in India, July, 2005 - June, 2006. Nearly 51.3 % of the workforce is either illiterate or educated below the primary level (Table 7). Even in industries where skill up-gradation for raising productivity requires a reasonable level of educational standard, 39.6 and 74. 0 % of the Social Networking Sites: workforce consisting of male and of being vegetarian female respectively was illiterate. The pattern of development of the Indian economy requires skill and education levels not immediately available thereby leading to a mismatch between the demand and supply of labour services – an increasing level of Sites: The Facts Essay, unemployment in one segment of the labour market coupled with a labour shortage in the other. Table 7: В Distribution of workers in the rural area by the level of education (%), 1999-2000. Level of general education. Source: This section draws upon pros of being vegetarian, the Report of the Task Force on Employment Opportunities, Planning Commission, Govt. of India (2001) The quality of world, employment also relates to wages and security of the worker. Wages paid/received depend on the productivity and education of the worker. Of Being Vegetarian! The more skilled and educated the higher the wage. A full-time worker, illiterate and Networking Sites: The Facts Exposed unskilled, may not earn adequate income. There is pros vegetarian high incidence of this kind of underemployment. Surveys reveal a substantial increase of illiterates among the unemployed persons (Table 8). Over the period of 1993-2005, the proportion of Networking The Facts, those with educational level up to primary among the pros of being vegetarian unemployed increased from and prejudice 1.9 - 3.0 % and 2.6 - 3.1 % in case of male and female respectively while unemployed decreased from 8.3 to 6.5 % among the secondary school or higher educational level and increased from 9.8 to pros 18.2 % in case of female. It shows not only pride, a lack of sufficient efforts and resources to educate the workforce, but also a mismatch between the kind of job opportunities that are needed and those that are available in the job market. The situation also indicates the need for more jobs requiring skilled labour rather than the of being simple low productive manual labour. Table 8:В В Education profile of the unemployed in India (%) Strength and weaknesses of non-farm sector. Non-farm activities either keep the jocasta poor falling into deeper poverty or are advantageous in lifting the poor above the poverty line. Keeping this in view, it becomes imperative to identify the strengths and weaknesses of the non-farm sector in India to focus on, in order to alleviate poverty. Vegetarian! The strengths and weaknesses of rural non-farm sector in India as highlighted by Mukherjee and Zhang (2005) have been discussed below. Institutional basis for rural non-farm sector: В In India, the institutions underlying the development of the rural non-farm sector are very strong. William! These include secure property rights; a well-developed financial system with preferential access to credit for the sector; supporting institutions such as the KVIC, State Khadi Board, NHHDC, Small Industries Development Bank of India (SIDBI), State industrial corporations; policies and of being programs promoting linkages with agriculture, especially agro-industries; domestic marketing channels for rural nonfarm production; as well as government support in export promotion. The institutional mechanisms for a rapid growth of the rural nonfarm sector are already in place. Decentralization process: Over the Social Networking The Facts Exposed Essay last two decades the State governments in India have been able to exercise far more independence in decision-making than in the pre-1980 period. Regional parties are an integral part in pros of being, coalition governments at the Center. In turn, they have negotiated economic autonomy in The Human Gene Therapy, the formation of state specific policies for development. Moreover, with the opening up of the economy in 1991, foreign direct investment (FDI) has come to play an important role in the overall policy environment. State governments are in competition with one another to attract higher FDI levels both in manufacturing and infrastructure. In some ways, it mirrors the path followed by China, although the volume of FDI coming to pros vegetarian India is less than 10 percent of what is flowing into Social Networking Sites: The Facts Exposed Essay China. On the positive side, however, this creates an opportunity for higher levels of investment in the future. Infrastructure: The most significant bottleneck in generating higher levels of rural nonfarm activity in India is the quantity, quality and reliability of pros of being, infrastructure. For example, the World Bank Investment Climate Survey for India indicates that power outages were one of the most serious obstacles to the development of the nonfarm sector ( Economist, 2005; World Bank, 2005). Although corrective steps are now being taken, increased infrastructure remains the most important priority for the future. To achieve a sustained growth rate of 8 - 9 percent, the investment rate has to be stepped up from the current level of 24 percent to nearly 35 percent over the next decade, with investment directed at the rural sector (Planning Commission, 2000). Regulatory restrictions on small-scale sector: Regulation of the small-scale sector constitutes an pride, important aspect of nonfarm development policy in India. In the initial stages, capital investment restrictions were imposed to protect the small-scale sector, especially in rural areas, from predation by large industry. Reservation of products for the sector was initiated to create a domestic market and quantitative restrictions imposed to protect them from competition from imports. At the end of the 1990s, however, these very policies have become detrimental to of being vegetarian the dynamism of the small-scale sector, especially in the rural areas. Capital investment limits have discouraged economies of scale, and wallerstein systems concessions offered to pros of being vegetarian small industry have created adverse incentives against re-investment. Several official reports have recommended a substantial increase in the capital investment limit (from the present level of around $200,000) to make better use of technology and improve productivity (Planning Commission, 2000). However, no such policy announcement has been made as yet. Reservation of products for william tiger, the small-scale sector has gradually reduced in significance, although this has created rents within the system. The decision of the pros of being vegetarian government to put all the reserved items in the open general license category from April 2005 would mean free import of such items at the prevailing tariff rate. With the latter slated to come down over time to mr bennett and prejudice around 20 percent as per the WTO norms, this will effectively signal the end of of being, protection for the small-scale industry. Quality of manpower: High levels of illiteracy in rural India have hampered the how does jocasta die growth of the rural nonfarm sector. Education has both intrinsic and instrumental value. Vegetarian! Apart from jocasta having a positive correlation with wages, a minimum basic standard of education is necessary to apply for credit, to be aware of one’s rights and responsibilities and to deal with instances of corruption and malpractice. Often, a lack of education is intrinsic to poverty, which seems to have been the case in India until recently. In the rural areas, lack of education leads to labor being stagnant in agriculture, or moving to casual work occupations in the nonfarm sector, and not to salaried employment with higher wages and benefits. Together with lack of technical skills, there is little incentive for rural firms to vegetarian invest in technology, leading to low levels of Gene Therapy example, labor productivity in the rural manufacturing sector compared to urban manufacturing (Chadha, 2003). The same is true of the service sector as well, which has the potential for pros, expansion given the already strong base in the urban economy. Higher investment to improve both the quality and the access to education (primary, secondary and above) needs to be a priority for policymakers. Forward and Careers Essay backward linkages : Absence of appropriate forward and backward integration greatly affects performance of non farm activities in rural areas. Forward linkages of the RNF sector serve as inputs to other sectors. Also, in backward linkages the RNF sector demands the outputs of other sectors. Empirical studies indicate that forward linkages from of being vegetarian RNF activities to agriculture (rurally produced agricultural inputs) are particularly important where traditional agricultural technologies are utilized, while in case of backward linkages between RNF activities and agriculture, especially the linkages between rural agricultural processing and Essay the agriculture sector and between rural transport and rural marketing activities are quite significant for rural economic development. However, gaps in the integration of the production linkages brought about by of being, poor infrastructure, low accessibility of market, support service weaknesses and intervention of middle men have constrained the development of non-farm enterprises in mr bennett and prejudice, India.В В. The RNF sector is increasingly playing an important role in the development of rural areas in Asia and the Pacific region. Specifically, as agriculture in the region declines in importance in terms of its contribution to the economy, the RNFS will need to become more and more a major provider of employment and income to many rural folks. Pros Of Being! It should be noted, however, that RNFE are not a substitute for employment in agriculture but rather as a supplementary measure. Agricultural development is still important and should be pursued as a necessary precondition. The promotion of RNFE also should be undertaken within the broader context of rural development. Efforts are needed to identify appropriate and effective institutional vehicles for development of wallerstein theory, non-farm sector policy and interventions for creating employment opportunities. Many strategies and programs to promote RNFE have been formulated in various countries. China’s labour-intensive township and pros of being vegetarian village enterprises (TVEs), for example, often described as the “engine of growth” behind that country’s remarkable growth during the past decades represents the vanguard in mr bennett pride, China's new capitalism. The TVEs are hybrid institutions generally unusual alliances between TVE entrepreneurs and local government officials (acting in pros, the capacity of "owners" of TVE enterprises). In this regard, the role of government is crucial, especially in the provision of necessary infrastructure and other support services in Essay, the country. It is also vital to improve the marketing links between the vegetarian village entrepreneurs and The Human Gene the larger business firms located in the towns/cities. Such strategic alliances or partnerships can contribute to the sustainability of small village and tiny enterprises in the rural areas. Other important considerations that need to be focused on may include human resource development, financial/credit facilities, research and development and women’s participation with a view to making the activities self-sustaining in of being, the changing competitive environment.

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Extraction of semantic biomedical relations from of being vegetarian, text using conditional random fields. © Bundschus et al; licensee BioMed Central Ltd. 2008. The increasing amount of william published literature in biomedicine represents an immense source of knowledge, which can only efficiently be accessed by a new generation of automated information extraction tools. Named entity recognition of well-defined objects, such as genes or proteins, has achieved a sufficient level of maturity such that it can form the basis for the next step: the extraction of relations that exist between the recognized entities. Whereas most early work focused on the mere detection of relations, the classification of the type of relation is also of great importance and pros vegetarian, this is the focus of die this work. In this paper we describe an pros, approach that extracts both the existence of a relation and its type. Our work is based on Conditional Random Fields, which have been applied with much success to the task of named entity recognition. We benchmark our approach on two different tasks. Gene Therapy Example. The first task is the pros of being, identification of semantic relations between diseases and Social Networking Essay, treatments. The available data set consists of manually annotated PubMed abstracts. The second task is the pros of being, identification of die relations between genes and diseases from a set of concise phrases, so-called GeneRIF (Gene Reference Into Function) phrases. In our experimental setting, we do not assume that the entities are given, as is often the pros, case in The Human Gene Essay, previous relation extraction work. Rather the extraction of the entities is solved as a subproblem. Pros Of Being Vegetarian. Compared with other state-of-the-art approaches, we achieve very competitive results on both data sets. To demonstrate the scalability of Therapy Essay example our solution, we apply our approach to the complete human GeneRIF database. The resulting gene-disease network contains 34758 semantic associations between 4939 genes and 1745 diseases. The gene-disease network is publicly available as a machine-readable RDF graph. We extend the framework of Conditional Random Fields towards the pros, annotation of semantic relations from text and apply it to the biomedical domain. Our approach is based on Careers, a rich set of textual features and achieves a performance that is competitive to leading approaches. The model is quite general and can be extended to handle arbitrary biological entities and relation types. The resulting gene-disease network shows that the GeneRIF database provides a rich knowledge source for text mining. Current work is focused on improving the accuracy of detection of entities as well as entity boundaries, which will also greatly improve the relation extraction performance. Cascaded CRF workflow for the combined task of NER and of being, SRE . In the first module, a NER tagger is trained with the above shown features. The extracted role feature is used to train a SRE model, together with standard NER features and relational features. We compare our two approaches with results obtained by william tiger a Support Vector Machine (SVM), a multilayer Neural Network (NN), probabilistic generative models, and with two simplified rule-based methods. We achieve higher or comparable accuracy on two evaluation data sets. In our first experiment, we identify semantic relations between diseases and treatments from PubMed abstracts using the cascaded CRF model. The detected relations are classified into pros of being vegetarian seven predefined types. In the second experiment, we extract semantic relations between genes and diseases from GeneRIF [ 9 ] sentences (five types of Exposed Essay relations) using both the cascaded and the one-step CRF. The cascaded CRF displayed better performance than the vegetarian, one-step CRF. The former was then applied to retrieve gene-disease relationships from the how does jocasta die, latest human GeneRIF database, validating the pros vegetarian, scalability of the approach. The extracted network consists of 4939 genes and 1745 diseases connected by 34758 semantic associations and is provided as a resource description framework (RDF) graph. RDF is an important component of the Semantic Web (SW) [ 10 ]; thus our work can also be understood as a first step towards shifting unstructured text toward the semantic markup of the biomedical web. The resulting RDF graph serves as an information source for subsequent analyses, for example, finding new gene-disease relationships based on basic graph properties. Services. The work presented by pros of being vegetarian [ 11 ] is william a promising example of a topology-based analysis, revealing new knowledge implicitly provided by a gene-disease network. Thus, a deeper analysis of our network extracted from textual knowledge in combination with additional biomedical background knowledge might be a promising venue for pros, future research. Relation Extraction (RE) deals with the how does jocasta, problem of finding associations between entities within a text phrase (i. e. usually, but not necessarily, a sentence). Common approaches for relation extraction use rule-based [ 12 ], co-occurrence-based [ 13 ] and kernel-based [ 14 ] methods. In biomedicine, RE has most often been applied to identifying relations between proteins [ 13 , 15 – 18 ]. [ 19 ] focus on detecting associations between proteins and subcellular locations, whereas [ 20 ] extract relations between genes, drugs and cell-lines in the context of cancer. Approaches for of being, extracting relations between genes and diseases are less prominent [ 4 , 21 ], however this area is attracting increasing attention. The different approaches vary in the granularity of the relation extraction process itself. While most studies focus only on detecting relations, a small number of approaches also attempt to extract and immanuel systems theory, characterize the type of relation between entities [ 4 , 6 , 18 ]. For example, [ 22 ] set up an pros of being vegetarian, interactive system where NLP methods are applied to generate a set of mr bennett pride and prejudice candidate relationship features, which are evaluated by pros vegetarian biological experts to generate a final set of relationship features. [ 4 ] set up a system called SemGen , which attempts to characterize the semantics of the Social Networking The Facts Exposed Essay, relations based on pros of being, whether a gene causes, predisposes, or is simply associated with a disease. In this system, gene entities are identified using existing NER taggers [ 20 , 23 ]. Disease entities are identified with the help of MetaMap [ 24 ], a program that maps biomedical text to concepts in the UMLS Metathesaurus [ 25 ]. William Blake. In a subsequent step, each gene-disease pair is classified into one of the relational categories with the help of manually inspected indicator rules. Pros Of Being. On a test corpus of 1000 sentences a precision of Social Exposed 76% is reported. Pros. [ 26 ] propose a heuristic post-processing strategy for mr bennett and prejudice, SemGen that aims at selecting the semantic relations that are most likely to be correct. Recently, [ 5 ] proposed a method to retrieve genes related to pros prostate cancer by identifying six gene-prostate cancer relations. Disease-treatment relation extraction from in Human, PubMed abstracts. This annotated text corpus provided by [ 6 ] was generated from MEDLINE 2001 abstracts. In a total of 3570 sentences, entities describing diseases and treatments were extracted and disease-treatment relations were classified as cure, only disease, only treatment, prevents, side effect, vague, does not cure . Note that, in contrast to the original work, we present results for the full data set, including sentences that contain no entities at all. Pros Of Being Vegetarian. We believe that this setting is much more realistic than looking only at sentences where at least one of the two entities occurs. The data, enriched with supplementary annotations, are provided online [ 27 ]. Gene-disease relation extraction from GeneRIF phrases. GeneRIFs [ 9 ] are phrases which refer to Essay example a particular gene in pros of being, the Entrez Gene database [ 28 ] and describe its function in a concise phrase. Our data set consists of mr bennett pride 5720 GeneRIF sentences retrieved from 453 randomly selected Entrez Gene database entries (see Additional file 1 with a list of pros all Entrez Genes used). Blake. The task is to extract and characterize relations between genes and diseases in of being, those sentences. Note that the and prejudice, gene entities themselves are known from the pros, Entrez Gene ID and die, do not need to be extracted (see section Methods ). Pros. We consider relations describing a wide variety of molecular conditions, ranging from genetic to transcriptional and phosphorylation events: Altered expression: A sentence states that the altered expression level of a gene/protein is associated with a certain disease or disease state. Careers. Example: 'Low expression of BRCA1 was associated with colorectal cancer.' Genetic variation: A sentence states that a mutational event is reported to of being vegetarian be related to a disease. Example: 'Inactivating TP53 mutations were found in 55% of lethal metastatic pancreatic neoplasms.' Regulatory modification: A sentence associates a disease to tiger a methylation or phosphorylation. Pros Of Being. Example: 'E-cadherin and p16INK4a are commonly methylated in non-small cell lung cancer.' Any: A sentence states a relation between a gene/protein and a disease, without any further information regarding the gene's state. Example: 'E-cadherin has a role in Therapy Essay example, preventing peritoneal dissemination in gastric cancer.' Unrelated: A sentence claims independence between a certain state of a gene/protein and a certain disease. Example: 'Variations in TP53 and BAX alleles are unrelated to the development of vegetarian pemphigus foliaceus.' From a biological perspective, methylation and phosphorylation events should be represented as two separate types. However, due to Careers Services the lack of pros vegetarian available examples, we considered both to be of the same type. Two human experts with biological backgrounds annotated the corpus with an inter-annotator agreement estimated of about 84%. A more detailed data set description as well as our annotation guidelines are provided as supplementary data (see Additional file 2 ). As we did not confine the study to how does jocasta die a specific disease model, the labeled disease entities are diverse in terms of the type, ranging from rare syndromes to pros of being well studied diseases, primarily cancer and neuro-degenerative diseases like Alzheimer or Parkinson. As mentioned in the Background , an entity corresponds usually to a phrase such as 'pancreatic neoplasms'. In our work disease entities were labeled in a way that preserves as much information as possible. For example, tokens specifying the disease like ' lethal metastatic pancreatic neoplasms', were considered to be part of one disease entity. Results for disease-treatment relations using PubMed abstracts. In this data set the mr bennett pride, key entity is not known a priori and the one-step CRF is not applicable. We only report results using the cascaded CRF approach. We benchmark our approach with [ 6 ], who compared five different graphical models (GM) and a multilayer neural network for identifying entities and disease-treatment relations. In the pros of being, first experiment, we compare the CRF for NER with the benchmark methods on the NER task. Jocasta. As in [ 6 ], we evaluate two settings for SRE. In the first setting, entities are assumed to be correctly labeled by hand in a preprocessing step and only the vegetarian, existence and the type of the relation between entities needs to be predicted. In the second setting, the Services Essay, entities need to be identified as well. Pros Of Being Vegetarian. To achieve comparable results we use identical accuracy measures, namely precision, recall and F-measure for NER, and william tiger, accuracy for SRE. Pros Vegetarian. Precision, recall and F-measure are estimated on a token level with the MUC evaluation score [ 29 ]. We used 5-fold cross-validation, in accordance with the 80%/20% training/test split used by [ 6 ]. Results for the disease-treatment corpus. Accuracy (Entities given) Accuracy (Entities hidden) NER and SRE performance based on evaluation scores proposed by Social Sites: The Facts [6]. Of Being Vegetarian. Relation classification accuracy for The Human, seven types of relations is shown for two settings: (1) when the entities are given as gold standard and (2) when the pros of being vegetarian, entities have to The Human Essay example be extracted. The cascaded CRF outperforms the best GM approach and it shows similar performance to the multilayer NN, where the latter approach can not be applied to the NER task, due to the large feature vectors. In summary, our cascaded CRF is clearly superior to the best graphical model of [ 6 ] in vegetarian, both tasks. In Human. The performance on SRE is vegetarian comparable to the multilayer NN, note however that this method is unable to to be applied to NER. Results for gene-disease relations using GeneRIF sentences. For the second data set a more stringent criterion for evaluating NER and SRE performance is used. William Tiger. As noted earlier, [ 6 ] use the MUC evaluation scoring scheme for estimating the NER F-score. The MUC scoring scheme for NER works at the token level, meaning that a label correctly assigned to a specific token is seen as a true positive (TP), except for those tokens that belong to no entity class. SRE performance is measured using accuracy. In contrast to [ 6 ], we assess NER as well as SRE performance with an entity level based F-measure evaluation scheme, similar to the scoring scheme of the pros of being, bio-entity recognition task at BioNLP/NLPBA [ 30 ] from 2004. Blake. Thus, a TP in our setting is a label sequence for pros, that entity, which exactly matches the label sequence for this entity from the gold standard. Section Methods introduces the terms token, label, token sequence and Careers Essay, label sequence. Consider the following sentence: 'BRCA2 is mutated in pros of being vegetarian, stage II breast cancer.' According to our labeling guidelines, the human annotators label stage II breast cancer as a disease related via a genetic variation. Assume our system would only recognize breast cancer as a disease entity, but would categorize the tiger, relation to gene 'BRCA2' correctly as genetic variation . Consequently, our system would obtain one false negative (FN) for not recognizing the whole label sequence as well as one false positive (FP). Of Being Vegetarian. In general, this is clearly a very hard matching criterion. In many situations a more lenient criterion of correctness could be appropriate (see [ 31 ] for a detailed analysis and discussion about various matching criteria for sequence labeling tasks). Results for the gene-disease corpus. Dictionary + naive rule-based. CRF + naive rule-based. NER and SRE performance comparison of one-step and cascaded CRF with three benchmark methods. The Human Example. The cascaded CRF is on par with the CRF+SVM model, where the of being, latter one requires an expensive preceding feature selection step. In the combined NER-SRE measure (Table 2 ), the one-step CRF is inferior (F-measure difference of Exposed Essay 2.13) when compared to the best performing benchmark approach ( CRF+SVM ). This is explained by the inferior performance on the NER task in of being vegetarian, the one-step CRF. World. The one-step CRF achieves only a pure NER performance of of being vegetarian 84.27%, while in Careers Services, the CRF+SVM setting, the CRF achieves 86.97% for pros of being, NER. Results Semantic Relation Extraction. NER and SRE performance of the cascaded CRF approach for the five different relation types according to jocasta recall, precision and F-measure averaged over the 10 cross-validation test runs. Evaluation of System Components. Key Entity Neighborhood. Contribution of different features to the overall performance of the one-step CRF for the 9th cross-validation run. The baseline model includes orthographic, word shape, n-gram and the basic context feature. Results gene-disease network from the complete GeneRIF database. The trained cascaded CRF model was applied to the latest GeneRIF version, consisting of a total of 110881 human GeneRIFs 1 . Gene-disease relations were identified and pros vegetarian, stored in a relational database in approximately six hours on a standard Linux PC with an Intel Pentium IV processor, 3.2 GHz. To provide the resulting information in a structured manner, we normalized each identified disease name by blake tiger mapping it to a MeSH ontology entry. We thereby applied a simple reference resolution strategy: First, we tried to map each identified disease to a MeSH entry's name or to pros of being vegetarian one of its synonyms. If the disease did not match an ontology entry, we iteratively decreased the number of tokens until the token sequence matched a MeSH entry. A reference resolution for gene names is not needed since the GeneRIF ID is known (see Methods for details). With this mapping strategy 34758 of the Careers in Human, 38568 disease associations could be mapped to an appropriate MeSH entry, resulting in a gene-disease graph with a total of 34758 semantic associations between 4939 unique genes and of being vegetarian, 1745 unique disease entities. Sample subgraphs of the gene-disease graph . Diseases are shown as squares, genes as circles. The entities for Networking Sites:, which associations are extracted, are highlighted in pros, yellow. We restricted ourselves to genes, which our model inferred to be directly associated with Parkinson's disease, regardless of the relation type. Careers Services Essay. The size of the nodes reflects the number of edges pointing to/from this node. Note that the of being vegetarian, connectivity is calculated based on wallerstein, the entire subgraph, whereas (a) shows a subgraph restricted to pros altered expression relations for Parkinson, Alzheimer and Schizophrenia and (b) shows a genetic variation subgraph for the same diseases. The resulting noisy graph is provided as a resource description framework (RDF) graph [ 35 ] (see Additional file 3 ). The Human Gene Essay Example. Thus, the association network is represented in terms of RDF triplets, i. e. subject (gene), predicate (association) and object (disease) using the Bio2RDF [ 36 ] URIs as unique identifiers for pros, genes and The Human Gene Therapy Essay example, diseases. In this paper we addressed the problem of pros extracting semantic biomedical relations with a sequence labeling approach, based on conditional random fields. CRFs are known to wallerstein easily incorporate a rich set of features without negatively affecting prediction accuracy [ 37 ] Thus there is no need for expensive preprocessing, such as feature selection. Two variants were developed, the cascaded CRF and the one-step CRF. We benchmarked our approach on two different data sets with different underlying properties. The first data set concentrates on mining relations from pros of being, general free text, such as PubMed abstracts or full text articles. In this type of text, only the cascaded CRF can be applied. In the cascaded CRF models, the Networking Sites: Essay, identified entities from the NER step are used as a feature for the subsequent SRE step (Figure 1 ). This is exactly where the difference between our approach and the classical view of problem lies, whereby the extracted entities are usually fixed after the first step and the only remaining task is to assign the of being, pair to the most likely relation type. The second data set contains concise phrases, created by Networking Exposed Essay domain experts. A particular feature of the second data set is that the investigated text phrase refers to a key entity (see Methods ). In this data set both the vegetarian, cascaded CRF and the one-step CRF can be applied. In the one-step CRF, NER and SRE step are merged together resulting in faster training. Blake Tiger. Unfortunately the performance was inferior to the cascaded CRF and pros of being vegetarian, other benchmark methods. Disease-treatment relations from PubMed abstracts. The performance of the cascaded CRF on Social Sites: Exposed Essay, the data set provided by [ 6 ] is on pros of being vegetarian, par with the multilayer NN and superior to the best GM. This may be due to the discriminative nature of CRFs and NNs, which could be an advantage over Careers in Human, the generative GM. Moreover, it should be stated that the multilayer NN does not scale well with the number of features, limiting its applicability. In [ 6 ] the NN could not be applied to the NER task, due to the large feature vectors. Our approach can be applied to of being both tasks, NER and Sites: Exposed Essay, SRE, achieving very competitive results. In contrast to [ 6 ], however, we do not make any use of syntactic higher-level features, such as Part-Of-Speech (POS) tags or Noun Phrase (NP) chunks. Pros Of Being Vegetarian. When the Social Networking Sites: The Facts Exposed Essay, entities are already given for the SRE task, our approach achieves very accurate results, with an increase in vegetarian, accuracy of 18 percentage points, compared to the case where the entities were hidden and in Human Services Essay, had to pros be recognized as well. Services Essay. Consequently, the most potential for further improvement lies in pros of being vegetarian, the correct identification of treatment and disease entities, since accuracy significantly decreases when the entities need to be identified and Sites: The Facts, were not given a priori. This is especially true for vegetarian, treatment entities, where performance of identifying treatments is only 64.85% (F-measure), compared to disease NER performance of 77.20% (F-measure). Thus, most errors in SRE do occur when e. g. in william tiger, the NER step a treatment entity was missed, resulting in a consecutive error of the following SRE step. Since the definition of treatments is in general vague, possible improvements could be achieved with the inclusion of a larger and/or more refined treatment dictionary. Pros Vegetarian. Currently, all entries of the D MeSH branch are simply used to william fill the treatment dictionary, while [ 6 ] stress the careful inclusion of vegetarian subbranches of the MeSH ontology. Gene-disease associations from GeneRIF phrases. On the Social The Facts Exposed, GeneRIF data set the cascaded CRF performs as well as the CRF+SVM model. However it should be noted that training of the cascaded CRF is pros of being much faster (factor of ten in our setting), since no time-consuming feature selection is needed. The one-step CRF cannot cope with the above mentioned methods, primarily as a result of a lower recall in the NER step. Gene. An investigation of different feature weights revealed a stronger dominance of relational features in the one-step CRF compared to the cascaded CRF. Thus, the absence of pros certain relational features hurts the NER performance of the one-step CRF, because the relational features are a strong indicator of an occurring disease entity in this model. The fact that for any relations, where our relational features are usually switched off, the performance decrease is example highest (F-measure difference 1.7, compared to the cascaded CRF) supports this hypothesis. Pros Of Being Vegetarian. For the remaining types of relations, the one-step model can cope with the benchmark approach. Major improvements for both approaches can be achieved with a more accurate detection of entity boundaries. The overall system performance significantly increases when relaxing the Social, hard matching criterion to softer ones (as presented in [ 31 ]). This implies that many entity boundaries are not identified properly. On the one side, this could be partly due to labeling inconsistencies of the human annotators. On the other side, it might originate from the labeling guidelines of diseases. All variable descriptions of a particular disease, such as the pros of being, form ' non-small cell lung cancer' or ' stage I-III endometrial cancer' had to be identified, as well as directly adjacent prepositional phrases like 'cancer of the in Human Essay, lung '. This makes the task clearly more challenging. The F-measure for a soft matching criterion, when only a part of an entity has to pros be detected properly, increases to 85.20% (F-measure) (NER+SRE). Another performance increase can be obtained with a more accurate detection of unrelated relations. In our framework an unrelated relation is a gene-disease pair for which a phrase states that the two entities are not related to each other under a specific setting. In contrast to previous studies, where unrelated relations are most often skipped, we decided to categorize them, since our corpus contains about 7% unrelated statements, which is roughly three times higher than in the work of [ 4 ]. However, for a supervised learning approach this is still a very sparse training set, resulting in a low accuracy. The same problem holds for Careers in Human, regulatory modification relations, where the poor performance is again likely due to the small amount of available examples in our corpus (only 3.5% of the pros, total number of relations). Thus, for both types of relations we expect a significant increase in william, performance with the of being vegetarian, inclusion of more training data. Regarding the definition of the gene-disease relation types, we emphasize that they do not account for the etiological property underlying a specific gene-disease relation. Thus, whether or not a gene is causing the disease or is mr bennett pride and prejudice just associated with the disease pathogenesis is not encoded in pros of being vegetarian, the gene-disease relationships defined here. However, our predefined types and how does die, the gene-disease relations extracted on that basis can provide helpful information for further biomedical research (e. g. annotation of experiments or providing additional information for of being, experiment design). For the identification of biomarker candidates, the information on which level of the william, biological dogma (e. g. DNA, RNA, protein etc.) molecules are discriminative for a certain disease, provides highly valuable information, independent of their role in the disease etiology [ 38 ]. Nevertheless, we plan to pros extend our relation types towards etiological information as proposed by [ 4 ]. Yet another issue is that we focus on extracting the relations and their types between entities and do not take into account additional information, such as the conditions/properties under which a relation holds. For example, when extracting associations between diseases and genes, it is important to know that certain facts hold for how does jocasta die, specific populations only. Incorporating these conditions into the relation extraction task, will require deeper syntactic analysis of the sentences. This is an aspect of our ongoing research. To validate the large-scale applicability of our SRE approach we mined all sentences from the latest human GeneRIF database and retrieved a gene-disease network for five types of of being vegetarian relations. As already noted, this network is a noisy representation of the 'true' gene-disease network due to the fact that the underlying source was unstructured text. The Facts. Nevertheless even though only pros, mining the GeneRIF database, the extracted gene-disease network reveals that a lot of additional knowledge lies buried in the literature, which is not yet reported in databases (the number of disease genes from GeneCards [ 39 ] is 3369 as of August 8th, 2007). Removing the genes which only The Human Therapy, have negative associations labels, results in a set of 4856 genes in our complete graph. Of course, this resulting gene set does not consist exclusively of disease genes. However, a lot of potential knowledge lies in the literature derived network for further biomedical research, e. Pros Vegetarian. g. for Gene, the identification of new biomarker candidates. In the future we are planning to replace our simple mapping strategy to MeSH with a more advanced reference resolution approach. If a labeled token sequence could not be mapped to a MeSH entry, e. g. 'stage I breast cancer', then we iteratively decrease the number of pros tokens, until we obtained a match. In the mentioned example, we would get an ontology entry for blake tiger, breast cancer. Pros Of Being. Of course, this mapping is not perfect and mr bennett pride, is one source of errors in our graph. E. g. our model often tagged 'oxidative stress' as disease, which is then mapped to the ontology entry stress. Pros Of Being. Another example is the token sequence 'mammary tumors'. This phrase is not part of the synonym list of the MeSH entry 'Breast Neoplasms', while 'mammary neoplasms' is. As a consequence, we can only map 'mammary tumors' to The Human Gene Therapy Essay example 'Neoplasms'. In general, criticism could be expressed against analyzing GeneRIF sentences rather than making use of the enormous information available from original publications. However, GeneRIF phrases are of high quality, as each phrase is either created or reviewed by MeSH (Medical Subject Headings) indexers, and the number of available sentences is growing rapidly [ 40 ]. Thus, analyzing GeneRIFs might be advantageous compared to a full text analysis, as noise and unnecessary text is already filtered out. This hypothesis is underscored by [ 41 ], who set up an annotation tool for microarray results based on two literature databases: PubMed and GeneRIF. They conclude that a number of benefits resulted from using GeneRIFs, including a significant decrease of false positives as well as an vegetarian, apparent reduction of search time. Another study highlighting advantages resulting from mining GeneRIFs is the work of how does jocasta die [ 42 ]. We propose two new methods for pros vegetarian, the extraction of Sites: The Facts Exposed Essay biomedical relations from of being, text. We introduce cascaded CRFs for SRE for mining general free text, which has not been previously studied. In addition, we use a one-step CRF for mining GeneRIF sentences. In contrast to jocasta die previous work on biomedical RE, we define the problem as a CRF-based sequence labeling task. We demonstrate that CRFs are able to infer biomedical relations with fairly competitive accuracy. The CRF can easily incorporate a rich set of features without any need for feature selection, which is one its key advantages. Our approach is quite general in that it may be extended to various other biological entities and relations, provided appropriate annotated corpora and lexicons are available. Our model is scalable to pros of being large data sets and Services Essay, tags all human GeneRIFs (110881 as of August 8th 2007) in a fairly moderate amount of time (approximately six hours). Pros Vegetarian. The resulting gene-disease network shows that the GeneRIF database provides a rich knowledge source for text mining. Our goal was to develop a method that automatically extracts biomedical relations from text and that classifies the extracted relations into one of wallerstein world theory a set of predefined types of relations. Pros Of Being Vegetarian. The work described here treats RE/SRE as a sequential labeling problem typically applied to NER or part-of-speech (POS) tagging. In what follows, we will formally define our approaches and describe the employed features. Semantic Relation Extraction as sequence labeling task. Sequential labeling tasks are also known as sequential supervised learning problems [ 43 ] and can be formulated as follows: Let ( x , y ) denote a pair of sequences where the how does die, tokens x 1 , x 2 , ⋯ , x n are words and vegetarian, y 1 , y 2 , ⋯ , y n are token labels or tags. The complete training set consists of M such sequence pairs. The goal is to build a classifier c that correctly predicts a new label sequence y = c ( x ) given the input sequence x . Whereas in NER y i denotes the entity class of x i , in how does, SRE y i denotes both the entity class and pros of being vegetarian, the relation class of x i . Tokens, which are not part of a named entity, are marked as outside (see Additional file 2 ). Labeling a new unseen token sequence is done via a Viterbi algorithm which finds the most likely label sequence according to equation ( 1 ). For more details on CRFs, see [ 44 ]. SRE as a cascaded sequence labeling problem. A typical example for a cascaded approach in natural language processing (NLP) is noun-phrase chunking. Here, the part-of-speech (POS) tags are derived by a trained tagger, in an intermediate step. In a second step the noun-phrases are extracted, where the blake, output of the first model serves as features for the second task. In the cascaded SRE, two CRFs are trained: a CRF for NER and a second CRF for SRE. The trained CRF for pros, NER is jocasta die first applied to identify all entities of interest. Vegetarian. These entities are then used as additional input features to help solve the SRE problem (Figure 1 ). Consider the following sentence from the disease-treatment corpus: 'We investigated the hypothesis that an antichlamydial macrolide antibiotic, roxithromycin, can prevent or reduce recurrent major ischaemic events in patients with unstable angina'. Networking Essay. In the first step, the treatment entity (antichlamydial macrolide antibiotic, roxithromycin) and the disease (unstable angina) are extracted by a NER CRF (see [ 6 ] for labeling guidelines). Thus, in the first step the task is to identify the labels disease and treatment for the corresponding tokens. The second CRF then identifies the relational labels disease_prev and treatment_prev based on the features derived for the first CRF and features representing the identified entities. Note, that a relation is pros of being represented as labels of the involved entities. SRE as a one-step sequence labeling problem. Here we only consider text phrases that refer to a key entity . All other entities in the text phrase, so-called secondary entities , are assumed to die be related to of being vegetarian the key entry. Thus, a secondary entity's label encodes the type of the entity plus the type of relation with the key entity. Note, that NER and SRE are solved jointly in one step. For example, [ 8 ] mined biographical texts, where the above stated assumption about immanuel wallerstein world, a key entity holds. GeneRIF sentences represent a similar style of text in vegetarian, the biomedical domain: They describe the function of a gene/protein, the william blake, key entity, as a concise phrase. Consider the following GeneRIF sentence linked to the gene COX-2: 'COX-2 expression is significantly more common in endometrial adenocarcinoma and pros of being, ovarian serous cystadenocarcinoma, but not in cervical squamous carcinoma, compared with normal tissue.' This sentence states three disease relations with COX-2 (the key entity), namely two altered expression relations (the expression of COX-2 relates to endometrial adenocarcinoma and ovarian serous cystadenocarcinoma) and one unrelated relation (cervical squamous carcinoma). We use the MALLET [ 45 ] package, which provides an Social The Facts Essay, efficient implementation for pros vegetarian, CRFs. We used linear-chain CRFs and used the default Gaussian prior provided by MALLET. The structure of the CRF in our setting is given by a linear-chain CRF (see e. g. [ 46 ] for a graphical representation). Tokens not belonging to Gene Therapy example any entities are marked as outside, while word tokens belonging to an entity (i. e. Of Being Vegetarian. diseases, treatments) are labeled with the type of the entity plus the relation type for this entity. In addition, a flag is Networking Sites: The Facts Essay set whether or not a token marks the beginning of an entity. Certain state transitions are constrained by default, as done in some NER approaches [ 37 , 47 ], e. g. the transition from inside an entity to vegetarian the beginning of an Social Sites: The Facts Exposed, entity is excluded by definition. The simplest features are the pros, word tokens themselves (no stemming performed). We do not use any higher level syntactic features like POS tags or NP chunks. Jocasta. Besides the of being, word features, we primarily make use of features which are extracted from the tokens themselves and which are described in the following paragraph. Note that the blake tiger, features are used in both types of CRFs (one-step and cascaded), unless explicitly stated otherwise. Features at the token level, e. g. orthographic, word shape, n-gram, dictionary and simple context features, have been extensively used in the IE community and have become a standard feature set for machine learning based IE approaches (see e. g. [ 6 – 8 , 18 , 37 , 47 – 49 ]). Init Caps Alpha. Orthographic features and their corresponding regular expressions used in the experiments. Some words belonging to vegetarian the same entity class might have the same word shape. For instance, it may be common for Networking Sites: The Facts Essay, disease abbreviations, that digits and letters cannot appear together in pros vegetarian, the token, while for genes and proteins the co-occurrence of digits and william blake tiger, letters is of being vegetarian striking. We also used character n-gram word features for 2 ≤ n ≤ 4. The Human Gene Therapy. These features help to recognize informative substrings like 'ase' or 'homeo', especially for words not seen in training. Since we are tackling two tasks of pros IE, namely NER and Social Networking Sites: The Facts Exposed, SRE, two classes of dictionaries are employed: (1) entity dictionaries consisting of controlled vocabularies and (2) relation dictionaries, which contain indicative keywords for types of relations. The disease dictionary is based on all names and synonyms of concepts covered by the disease branch (C) of the of being, MeSH ontology. Wallerstein. In addition, a treatment dictionary is introduced for the disease-treatment extraction task, composed of all names and of being, synonyms of concepts from the Social Sites: The Facts Exposed Essay, MeSH D branch. We defined four relation dictionaries for the GeneRIF data set, each composed of relation type specific keywords for pros of being vegetarian, the following types of The Human Essay example relations: altered expression , genetic variation , regulatory modification and unrelated . For example, the genetic variation dictionary contains words like 'mutation' and 'polymorphism'. Vegetarian. For disease-treatment relations we set up dictionaries containing keywords for prevent and side effect relations. The relation specific dictionaries are provided as supplementary data (see Additional file 4 and 5 ). In general, a dictionary feature is how does jocasta active if several tokens match with at least one entry in the corresponding dictionary. Note that the presence of a certain dictionary entry in a sentence is indicative, but not imperative, for a specific entity or relation. This property is elegantly handled by the probabilistic nature of pros our approach. These features take into in Human Services account the properties of preceding or following tokens for a current token in order to determine its relation. Context features are very important for pros vegetarian, several reasons. Immanuel Wallerstein World Systems. First, consider the case of nested entities: 'Breast cancer 2 protein is expressed . '. Of Being. In this text phrase we do not want to identify a disease entity. Thus, when trying to mr bennett and prejudice determine the correct label for vegetarian, the token 'Breast' it is blake tiger very important to know that one of the following word features will be 'protein', indicating that 'Breast' refers to a gene/protein entity and not to a disease. In our work, we set the window size to three for this simple context feature. The importance of context features not only holds for the case of nested entities but for RE/SRE as well. In this case, other features for preceding or following tokens may be indicative for predicting the type of relation. Thus, we introduce additional features which are very helpful for determining the type of relation between two entities. Pros. These features are referred to as relational features throughout this paper. For each of the relation type dictionaries we define an Social Networking The Facts Essay, active feature, if at least one keyword from the corresponding dictionary matches a word in the window size of 20, i. Of Being. e. -10 and +10 tokens away from the current token. Key Entity Neighborhood Feature (only used for one-step CRFs) For each of the relation type dictionaries we defined a feature which is immanuel wallerstein world systems active if at least one keyword matches a word in the window of 8, i. Pros Of Being Vegetarian. e. -4 and Social Sites: Exposed Essay, +4 tokens away from one of the key entity tokens. To identify the position of the key entity we queried name, identifier and synonyms of the corresponding Entrez gene against the sentence text by case-insensitive exact string matching. For each of the relation type dictionaries we defined a feature which is pros of being active if at least one keyword matches a word in the first four tokens of a sentence. With this feature we address the fact that for many sentences important properties of a biomedical relation are mentioned at the beginning of a sentence. This feature is Essay example active, if none of the pros of being, three above mentioned special context features matched a dictionary keyword. It is very helpful to distinguish any relations from more fine-grained relations. To keep our model sparse the relation type features are based solely on dictionary information. However, we plan to integrate further information originating, for example, from word shape or n-gram features. In addition to the relational features just defined, we set up additional features for our cascaded approach: Role Feature (only used for cascaded CRFs) This feature indicates, for cascaded CRFs, that the first system extracted a certain entity, such as a disease or treatment entity. This means, that the jocasta die, tokens that are part of an pros of being vegetarian, NER entity (according to the NER CRF) are labeled with the type of entity predicted for the token. Feature Conjunction Feature (only used for cascaded CRFs and only used in the disease-treatment extraction task) It can be very helpful to know that certain conjunctions of features do appear in a text phrase. E. g., to know that several disease and treatment role features do occur as features in conjunction, is important to jocasta die make relations like disease only of being, or treatment only for william, this text phrase quite unlikely. 1 downloaded on August 8th 2007. Conditional Random Field. Medical Subject Heading. Message Understanding Conference. Named Entity Recognition. Resource Description Framework. Semantic Relation Extraction. Support Vector Machine. The authors wish to thank Chad Davis and four anonymous reviewers for very helpful comments on an earlier version of this work. Pros. We thank Sonja Hopf from the Evolutionary and Functional Genomics group (LMU Munich) for valuable biological feedback. In Human Essay. 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This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( http://creativecommons.org/licenses/by/2.0 ), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Share on Twitter Share on Facebook Share on LinkedIn Share on Weibo Share on vegetarian, Google Plus Share on Reddit. By continuing to use this website, you agree to die our Terms and Conditions, Privacy statement and Cookies policy. © 2017 BioMed Central Ltd unless otherwise stated. Pros. Part of jocasta die Springer Nature.

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APA Essay Format: Help with Writing Your Essay Paper. An APA , American Psychological Association, style is a standard of writing academic papers in of being, a variety of Social Networking Sites: Exposed subjects relevant to the social sciences. This allows to write essays and research papers according to the same generally accepted standard in Sociology, Psychology, Education, Political Science, Business and other disciplines. Vegetarian? APA Style is Careers in Human Services, notable for certain requirements related to paper format, font, margins and headings, as well as referencing. We designed this page to guide you through all the peculiarities of formatting a paper in APA style . Of Being Vegetarian? Learning about pride APA style will be a very rewarding experience for you, as you will be able to reply it in all of your next writing assignments. Quick Navigation through the APA Essay Format Page: The Fundamentals of an APA Essay Format. What comprises the APA style ? Does it provide requirements only to pros, referencing the sources or to whole essay? In their published guide book, the mr bennett pride and prejudice, American Psychological Association, provides APA standards on the following issues: Title page. Unlike MLA style which doesn’t require a title page, it is a must in APA essay format . Of Being? It usually contains such standard elements as the title of the paper, the student’s name, teachers or course name, and the due date. The APA title page can be easily distinguished by the running header, the mr bennett pride, page number on the title page and two titles (a short one is pros of being, followed by the full title). Abstract . Mr Bennett Pride And Prejudice? Abstract is a single paragraph usually a half page long, and is written on a separate sheet. An abstract summarizing the entire paper has the of being, same copyrights as the whole paper. It should provide the main ideas/results of the paper and mention the methodology used to achieve them. Page format . Page format recommendations in pride and prejudice, APA style concern page numbers, margins, indentation and spacing. In-text references . The format of references in APA format is the foremost subject of student’s concerns. You may pick up citations, quotations and summaries from various sources to support your statements. When you use the idea or results that are not yours, they are to pros, be referenced correctly. APA style approves of Social The Facts Exposed Essay in-text references. The author and the year of publication should be included within the parenthesis in pros, the essay. Page numbers also need to be mentioned when picking up lines from a book. Use of quotations . APA style recommends to put short quotations in quotation marks. If the quotations used exceed the The Human Essay example, word limit of 40 words, then the writer should indent 5 spaces from the margin and it should be double spaced. Also, in vegetarian, case of die a long quotation, quotation marks should not be used, instead it should be ended with a full stop. Headings . Though it may be not required for an essay, but if you will write a research paper or thesis in APA format you’ll need to structure it. Headings are used to separate and classify paper sections. Thus use different heading styles for headings of sections and subsequent subsections. Reference list . Reference list is a must when you use in-text references, for you need to present the of being, full information about the sources used.The reference list includes all sources used in the essay writing and cited in the paper, and it is arranged according to jocasta, the alphabetical order by author. It is also of great importance to pros of being, know how exactly different sources are cited as books, journals, magazines, and web pages are cited in a different way with certain requirements to Social The Facts Essay, each type of a source. You may consider how the basic APA requirements are met in APA Essay sample . APA Essay Template (Cick the Image to Enlarge) When using APA style there are a few standards to keep in mind: double spaced; have all the margins set to vegetarian, one inch; it’s recommended to use the mr bennett pride, font serif typeface for the text and sans serif typeface for any labels; use 10-12 for the font size; always have page numbers; a header with the title of the paper should also be used. So, you may either format your essay in APA format yourself or download APA Template in rtf file from P rof E ssays.com . Our expert writers will format your paper for pros free when you place an order on william our website. 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Use our interactive calculator to pros of being vegetarian, see how much it will cost you to gain your freedom back. Within 10 minutes, you can be out having the time of mr bennett pride and prejudice your life while we write an pros of being A+ paper for you and The Human Gene Therapy Essay example, deliver it to your inbox always on time! Learn More. Why choosing us to help? P rof E ssays.com has been providing custom writing services to students for the past eight years. Thousands of students have benefited from our services, achieving excellence in their courses and pros vegetarian, education. The evident testimony to the excellence of our services and Services, the trust our customers have in us is that 65% of our customers come back with repeat orders. Your privacy is important to pros vegetarian, P rof E ssays.com , none of your personal information or details, such as credit card or banking details, will ever be compromised or disclosed to The Human Gene Therapy Essay, any third party. Pros Vegetarian? You are always on the save side with P rof E ssays.com ! Click here to place your order. References are obligatory in a body of the essay if you use some external sources, and especially when you cite them in the APA essay . In-text references are used instead of footnotes in APA format. The sources are indicated by the last name of an author, a year of publication and a page number (if possible). In-text references are put in Therapy Essay example, parenthesis (round brackets) within the pros, sentence. Thus the standard in-text reference in APA style will have the following format (Author, year) or (Author, year, page) . But there may be variations: 1. If you are referring to an idea from Therapy Essay example, another work, summarize it findings, or tell about the authors viewpoint – you are referring to pros of being, the whole book and should use (Author, year) format. Example : T. Networking Sites:? E. Lawrence, a British intelligence officer, became regarded as the man who was in charge of the pros of being, Arab revolt (Thomas, 1924). 2. Immanuel Wallerstein World Systems Theory? If you are quoting the source or bring in figures provided in it, you need to include the page number in your in-text reference. Like: (Author, year, page). Example : Lawrence was compared to pros of being, “a caliph who had stepped out Social Networking The Facts Essay, from the pages of ‘The Arabian nights'” (Thomas, 1924, 16) 3. If the pros, author or the die, year of publication is already mentioned in the sentence there is no need to repeat this information in the in-text citation again. 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Organization: (ProfEssays.com, 2009) Book: (The correspondence, 1914) The reference list includes all sources used in the course of the essay and wallerstein world, cited in vegetarian, the paper. The references should always be organized in alphabetical order . This gives an organized look to the essay. It is Networking Sites: The Facts, also important to pros of being vegetarian, know exactly how different sources, such as books, journals, magazines, and web pages should be shown in the reference list. As certain requirements differ for each type of source: Book : Author, A. (Year of publication). Title of work: SUBTITLE. Location: Publisher. Note: if you have several books by die the same author in pros vegetarian, the reference list, you should list them in jocasta, chronological order. Article : Author, A. (Year). Title of pros article. Title of Social Networking The Facts Essay Periodical, volume number (issue number), pages. on-line source : Author, A. A. (Year, Month Date – if availiable). Pros Vegetarian? Title of immanuel article. Name of the web-site. Retrieved from http://www.url/ on Year, Month Date. Readers and writers alike can find headings as a useful tool in writing. Pros Vegetarian? Aside from providing order, essay headings can function as an ID – in the sense that it can provide identification on the ideas that are presented below. Headings function as a guide for your readers, as it will clue them in on your thought flow. The APA style allows five levels of headings when writing. Level one is the first category, while the subsequent levels are provisions for Careers Essay succeeding sub-categories. In the APA essay format it is of the utmost importance to use the titles and headings appropriately. Pros Vegetarian? 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