Datasets:

WINGNUS
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ACL-OCL

	{
	"paper_id": "2020",
	"header": {
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	"date_generated": "2023-01-19T14:06:10.762968Z"
	},
	"title": "Towards an ontology-based medication conversational agent for PrEP and PEP",
	"authors": [
	{
	"first": "Tuan",
	"middle": [],
	"last": "Amith",
	"suffix": "",
	"affiliation": {
	"laboratory": "",
	"institution": "The University of Texas Health Science Center at Houston Houston",
	"location": {
	"settlement": "Texas"
	}
	},
	"email": ""
	},
	{
	"first": "Licong",
	"middle": [],
	"last": "Cui",
	"suffix": "",
	"affiliation": {
	"laboratory": "",
	"institution": "The University of Texas Health Science Center at Houston Houston",
	"location": {
	"settlement": "Texas"
	}
	},
	"email": ""
	},
	{
	"first": "Kirk",
	"middle": [],
	"last": "Roberts",
	"suffix": "",
	"affiliation": {
	"laboratory": "",
	"institution": "The University of Texas Health Science Center at Houston Houston",
	"location": {
	"settlement": "Texas"
	}
	},
	"email": ""
	},
	{
	"first": "Cui",
	"middle": [],
	"last": "Tao",
	"suffix": "",
	"affiliation": {
	"laboratory": "",
	"institution": "The University of Texas Health Science Center at Houston Houston",
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	"settlement": "Texas"
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	"abstract": "HIV (human immunodeficiency virus) can damage a human's immune system and cause Acquired Immunodeficiency Syndrome (AIDS) which could lead to severe outcomes, including death. While HIV infections have decreased over the last decade, there is still a significant population where the infection permeates. PrEP and PEP are two proven preventive measures introduced that involve periodic dosage to stop the onset of HIV infection. However, the adherence rates for this medication is low in part due to the lack of information about the medication. There exist several communication barriers that prevent patient-provider communication from happening. In this work, we present our ontologybased method for automating the communication of this medication that can be deployed for live conversational agents for PrEP and PEP. This method facilitates a model of automated conversation between the machine and user can also answer relevant questions.",
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	"paper_id": "2020",
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	"abstract": [
	{
	"text": "HIV (human immunodeficiency virus) can damage a human's immune system and cause Acquired Immunodeficiency Syndrome (AIDS) which could lead to severe outcomes, including death. While HIV infections have decreased over the last decade, there is still a significant population where the infection permeates. PrEP and PEP are two proven preventive measures introduced that involve periodic dosage to stop the onset of HIV infection. However, the adherence rates for this medication is low in part due to the lack of information about the medication. There exist several communication barriers that prevent patient-provider communication from happening. In this work, we present our ontologybased method for automating the communication of this medication that can be deployed for live conversational agents for PrEP and PEP. This method facilitates a model of automated conversation between the machine and user can also answer relevant questions.",
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	"section": "Abstract",
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	"text": "HIV can cause a dangerous infection that can lead to AIDS, a disease that can lead to severe immunological symptoms and eventual death. Common modes of infection include sexual contact, blood transfusion, or the sharing of drug paraphernalia. While the rates have dropped over the last few decades, HIV infection is not uncommon. For example, there is an infection rate of 2 million globally (World Health Organization, 2017) and 39,782 within the United States (Hess et al., 2018) . In addition, a segment of the American population with HIV are unaware of the HIV status (Centers for Disease Control and Prevention, 2016) , and therefore at risk of spreading the disease to other individuals.",
	"cite_spans": [
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	"text": "States (Hess et al., 2018)",
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	"text": "Control and Prevention, 2016)",
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	"section": "Introduction",
	"sec_num": "1"
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	"text": "Advances in medication introduced PrEP and PEP. PEP refers to the use of antiretroviral drugs for people who are HIV-negative after a single highrisk exposure to stop HIV infection, while PrEP is a prevention method for people who are HIVnegative and have high risks of HIV infection. Both of these treatments require consistent adherence to the dosage in order to be fully effective, but adherence is an issue for patients subscribed to it. Providers in particular are concerned about the consistent adherence to PrEP (Wood et al., 2018; Blackstock et al., 2017; Clement et al., 2018) .",
	"cite_spans": [
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	"start": 514,
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	"text": "PrEP (Wood et al., 2018;",
	"ref_id": null
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	"start": 539,
	"end": 563,
	"text": "Blackstock et al., 2017;",
	"ref_id": "BIBREF8"
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	"start": 564,
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	"text": "Clement et al., 2018)",
	"ref_id": "BIBREF12"
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	"section": "Introduction",
	"sec_num": "1"
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	"text": "It has been reported that if PrEP adherence is high, rates of HIV infection will be sizeably reduced (Smith et al., 2015) . However, adherence to PrEP is no different than other challenges with medications, such as the patient comprehending the administration of the medication and remembering to take it (American Medical Association, 2016). On top of that, the Centers for Disease and Control (CDC) specifically prescribes periodic counseling, and coordinating with patients on a one-on-one basis (Centers for Disease Control and Prevention, 2014) . But time burdens and manpower to conduct counseling pose another challenge (Krakower et al., 2014) .",
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	"section": "Introduction",
	"sec_num": "1"
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	"text": "In a previous study, Amith et al. (2019a) utilized an ontology-based method to model the dialogue for the counseling of the HPV vaccine. In this study, we tailor the method for PrEP and PEP counseling with the intent that this could be employed in portable tools for drug users to use. A benefit of using an ontology approach, other than exploiting network-based model for dialogue, is the potential to link the ontology to representations of health behavior models (like the transtheoretical model). Systems that leverage health behavior models, according to Kennedy et al. (2012) , have demonstrated to be more impactful on affecting health behaviors of users. Also, an ontology that models dialogue can yield standardization and sharing. Amith et al. (2019b) noted from their literature review on PubMed that there is limited ontology-centric studies for health-based dialogue management. Amith et al. (2020) simulation studies have also shown evidence that automated counseling, specifically conversational agents for vaccines, could impact the health attitudes and beliefs that can lead to improved uptake with perceived high usability.",
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	"section": "Introduction",
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	"text": "Ontologies are artifacts that represent and encode domain knowledge for machines to understand a domain and their physical environment. According to one school of thought, if machines have symbolic understanding of their domain and environment, it could potentially provide nearautonomous operation of tasks. Imbuing software with autonomous task of dialogue interaction requires some measure of intelligence. Intelligent agents are defined as having reactive, proactive and social ability features (Wooldridge and Jennings, 1995) . Reactive refers to the software ability for timely response to the environment. Proactive refers to the initiative driven aspect of the software to accomplish tasks, and social ability involves the software handling external interaction with the environment (virtual or physical). How these qualities manifest vary by the architectural approach (reactive agents, reasoning agents, etc.) which is beyond the scope of discussion.",
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	"text": "(Wooldridge and Jennings, 1995)",
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	"text": "Researchers mention the use of internal data models within the architecture of the agents (Wooldridge, 2009) . The models' role in the system is to provide the agent with decision making capabilities to perform autonomously in the environment. This would include 1) representing the domain knowledge for the agent, 2) providing information of the surrounding environment of the agent, and 3) cataloging the previous actions of the agent (e.g., for the agent to learn). According to Hadzic and colleagues, these models could be manifested as a group of ontologies (Hadzic et al., 2009) . Furthermore, they state some inherit benefits such as producing shared communication models between agents and systems, information retrieval, organization of the agent's task, and analytical and reasoning of the knowledge (Hadzic et al., 2009) .",
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	"text": "The ontology-based solution also attempts to solve some of the issues with reasoning agents like the transduction problem and the representation/reasoning problem (Wooldridge, 2009) . The Transduction problem is how to translate the world or domain that the agent is embodied in into symbolic representations. The representation and reasoning problem pertains to the challenge of manipulating the symbolic representations and applying reasoning for the agent. With ontologies, we can model a domain space or the environment using predicate logic that is syntactically encoded into a machine-readable artifact. Within the context of this work, this method maps utterances of the user and the machine to concepts represented in our ontological model. Also, with the availability of reasoners, like Pellet (Sirin et al., 2007) or HermiT (Glimm et al., 2014; Shearer et al., 2008) , we can perform reasoning based on the encoded model to generate inferred dialogue context information.",
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	"section": "Introduction",
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	"text": "From a natural language processing (NLP) standpoint, dialogue is essentially a sequence of utterances between multiple agents. Our work utilizes a finite state transition network to model the dialogue (Allen, 1995; Jurafsky and Martin, 2000) , and then encodes this sequence model of the utterances within the ontology. We also employ some lightweight NLP methods to help the agent discern participant utterances, alongside with the reasoning capacities of the agent. For the design of the dialogue system, we utilize a deterministic and planned approach to automate the counseling versus a generative approach in order to cover certain main points to communicate to the drug user. This gives us the control needed to ensure the conversational agent delivers the appropriate counseling. The dialogue will center around a closed world domain -specific to only PrEP and PEP, and HIV infection. The following sections will cover the development of the conversational agent and discussion through results of a Trindi Tick assessment for dialogue system evaluation and future steps with our work.",
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	"section": "Introduction",
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	"text": "We developed a series of ontologies to provide the software agent with interaction abilities -to model patient-level information and the dialogue flow for the agent to coordinate the interaction with the user.",
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	"section": "Ontology Models",
	"sec_num": "2.1"
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	"text": "For the PrEP and PEP information source we created the Ontology of PrEP and PEP (OPP), using patientlevel sources (brochures and websites). The OPP describes basic dosing, benefit and harms, cost, po-tential users, and other pertinent information that patients would like to know. This ontology provides a knowledge base for atomic facts for the dialogue flow ontology, PHIDO. This early version of OPP has 152 classes, 57 object properties, 23 data properties, and 10 instance individuals. Patient Health Information Ontology Dialogue (PHIDO) The Patient Health Information Ontology Dialogue is an ontology developed in the previous study to model a chain of utterances between the machine (utterances of the system) and the user speaking directly with the machine (utterance of the participant). Figure 1 displays the Utterance class in PHIDO. The parent Utterance class has several data properties that are used to help facilitate the flow the machine's conversation and are linked together using \"precedes\" or \"follows\" to indicate precedence of the utterances. PHIDO's TBox level metrics contain 86 classes, 9 object properties, and 5 data properties. Details of the ontology is discussed in the authors' previous study (Amith et al., 2019b) .",
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	"text": "Figure 1",
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	"section": "Ontology of PrEP and PEP (OPP)",
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	"text": "Essentially, each triple (i.e. predicate) from OPP is utilized by PHIDO to communicate statements about PrEP or PEP ( Figure 2 ). Within PHIDO, an utterance data (instance) is linked to each predicate for the machine to either speak or to help discern utterances spoken by the user. Figure 3 shows the meta-level description of the dialogue that starts with basic introduction and acclimation of the user with the machine and closing out the counseling. The core goals of the dialogue is to communicate facts (Health Information) and to handle questions at any time for the user (Question Answering). The flow of communication for health information is facilitated by a sub-goal we call Discuss Health Topic (DHT) which is modeled in the PHIDO and allows for population of utterance data that aligns with the concepts in DHT.",
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	"text": "Figure 2",
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	"text": "Figure 3",
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	"section": "Ontology of PrEP and PEP (OPP)",
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	"text": "From a previous study we developed a software engine that uses the aforementioned ontology models (Amith et al., 2019a) . The software engine also supports question answering if the ontology model infers a question based on the context of the dialogue flow (e.g., an answer follows a question, a question precedes a point of confusion in the conversation, etc.).",
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	"section": "Dialogue System",
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	"text": "On Figure 4 , we demonstrate the execution of the engine using the PHIDO to model the communication of patient-level information to the user. Here the system evokes each patient-level health fact (Health Information) about PrEP, sourced from the OPP. Any question recognized by the engine will attempt to answer the question using an ontologybased question answering (QA) sub-system of the engine. Once the utterance of the user is identified as a question, the type of question, the nouns, and verb phrases are analyzed against the OPP predicates. After selection, ranking, and filtering, the answer is evoked by the system. Details about the implementation is described in (Amith et al., 2019a) , and Figure 5 shows an example demonstration with a question and a response from the QA system.",
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	"text": "Figure 4",
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	"text": "Figure 5",
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	"text": "Aside from the finite-state diagram approach for the engine, we also employed some NLP methods as slave functions for the engine to operate -discerning the type of participant utterance for the main dialogue system and comparing the question data with ontology triples for the question-answering subsystem.",
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	"section": "NLP-based Slave Functions",
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	"text": "Discerning Participant Utterances When capturing input from the user, the engine will need to distinguish the type of user utterance to direct the flow of the dialogue. Each utterance concept was annotated to a set of examples that were representative of its type. For example, the Utterance class of Question has string examples of \"could you tell me\", \"how many\", \"list\", and the Disconfirmation class has examples such as \"negative\", \"never\", \"none\", etc. Using the inputted utterance of the user, the text is compared to the string examples using Monge-Elkan (Monge et al., 1996; Every participant utterance P U expected by the system contains example data EU n . EU n has a number of string text T T n that are a set of tokens ",
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	{
	"text": "t n . \u2200 P U n EU n n EU n n \u2208 \uf8f1 \uf8f4 \uf8f2 \uf8f4 \uf8f3 T T n , where T T = {t 1 t 2 \u2022 \u2022 \u2022 t n }",
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	"text": "t is a string token Definition 2.2 (User utterance). User utterance U U for the dialogue system is a set of string tokens",
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	"text": "t n \u2200 U U = {t 1 t 2 \u2022 \u2022 \u2022 t n }",
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	"text": "Definition 2.3 (Identifying the participant utterance). To find the exactly identified P U n the dialogue system attains a comparison s(x) that is the maximum and the greater than a defined threshold T H among all of the example utterances EU n within each expected utterance P U n .",
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	"text": "P U n \u21d2 T score = max(s(x)) > T H s(x) = \uf8f1 \uf8f4 \uf8f2 \uf8f4 \uf8f3 EU n n \u2229 U U, where EU n n = t e 1 t e 2 \u2022 \u2022 \u2022 t e n",
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	"section": "NLP-based Slave Functions",
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	"text": "Defintion 2.3.1 (Identifying the participant utterance). Assuming that Definition 2.3 fails to find the expected participant utterance P U n , the dialogue system resorts to finding exact match of the beginning string tokens EU and U U from example utterances EU n n and the user utterance U U .",
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	"text": "P U n \u21d2 T score = b(x) b(x) = {EU n n \u2248 U U \u21d2 EU n = U U }, where EU n \u2208 EU n n = EU n = {t e 1 t e 2 \u2022 \u2022 \u2022 t e n\u2212m } EU n n = {t e 1 t e 2 \u2022 \u2022 \u2022 t e n } U U \u2208 U U = U U = {t 1 t 2 \u2022 \u2022 \u2022 t n\u2212m } U U = {t 1 t 2 \u2022 \u2022 \u2022 t n }",
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	"section": "NLP-based Slave Functions",
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	"text": "Comparing Question Data and Ontology Triples For the question answering subsystem, the system utilized off the shelf NLP tools like Stanford Core (Manning et al., 2014) to extract data from the question. To preform the matching described in (Amith et al., 2019a) , we also utilized a combination of either word embedding using Numberbatch vector model (Speer and Lowry-Duda, 2017) (with Semantic Vectors (Widdows and Cohen, 2010) as the interface layer) or the string similarity methods discussed earlier, and extJWNL (Autayeu, 2016) where we assign a score to each triple from the knowledge base (OPP). For brevity, we applied various rules and thresholds to select and filter triples to present an answer. Definition 2.4 (Primary Question Data). Given a question Q, there are a subset of elements N P n and V P n (noun phrases and verb phrases) that are essential data Q for the subsystem. ",
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	"text": "Q \u2208 {N P n , V",
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	"text": ":= T S T S \uf8f1 \uf8f4 \uf8f4 \uf8f4 \uf8f4 \uf8f2 \uf8f4 \uf8f4 \uf8f4 \uf8f4 \uf8f3 sim(s {o,d,c} n , N P n ) = S sn n sim(o {o,d,c} n , N P n ) = S on n sim(p {o,d,c} n , V P n ) = S pv n T S = mean(S sn n , S on n , S pv n )",
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	"text": "3 Results",
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	"sec_num": "2.2.1"
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	"text": "We utilized the Trindi Tick list to ascertain the comprehensive functionality of the dialogue engine's ability (Bickmore et al., 2018; Bos et al., 1999) . With the exception for the classic Trindi Tick list, according to Bickmore et al. (2018) , there is limited formalized standard evaluations for dialogue systems. The Trindi Tick list covers 12 criteria pertaining to handling quality and quantity of user responses, sub-dialogue flows, intelligible responses, etc.",
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	"text": "(Bickmore et al., 2018;",
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	{
	"start": 135,
	"end": 152,
	"text": "Bos et al., 1999)",
	"ref_id": "BIBREF9"
	},
	{
	"start": 221,
	"end": 243,
	"text": "Bickmore et al. (2018)",
	"ref_id": "BIBREF6"
	}
	],
	"ref_spans": [],
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	"section": "NLP-based Slave Functions",
	"sec_num": "2.2.1"
	},
	{
	"text": "No, specifically pertaining to personal contextual information of the user. For example, personal contextual information that is tailored to specific demographic based on behavior or demographic. Another case is a repeat of information that has already been resolved. For example, a user asked a question about side effects of PrEP and then later on the system communicated side effects of PrEP. Ideally it would preferable to skip over the side effect of PrEP if the user had asked the question already.",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Is utterance interpretation sensitive to context",
	"sec_num": "3.1"
	},
	{
	"text": "3.2 Can the system deal with answers to questions that give more information than was requested Partially yes. This criterion is based on the coverage of the ontology, as the system will attempt to match every predicate that is associated with entities and relationship from a user question.",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Is utterance interpretation sensitive to context",
	"sec_num": "3.1"
	},
	{
	"text": "3.3 Can the system deal with answers to questions that give different information than was actually requested and 3.4 Can the system deal with answers to questions that give less information than was requested?",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Is utterance interpretation sensitive to context",
	"sec_num": "3.1"
	},
	{
	"text": "Yes, for example, a user can ask a question at any point which will activate the question-answering subroutine. Generally, the system overall is indiscriminate about the amount of information said by the user and will react.",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Is utterance interpretation sensitive to context",
	"sec_num": "3.1"
	},
	{
	"text": "Partially yes. Similar to criterion 3.2, this is based on the coverage of the ontology and the similarity measurements.",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with ambiguous designators",
	"sec_num": "3.5"
	},
	{
	"text": "No, not intentionally. We presume that this criterion refers to non-explicit negative responses that compliment the designators, other than stating no or similar negative utterances. With the former, the negated tokens are ignored when the system analyzes the utterance. With the latter, if expected, the system can deal with those responses (e.g., \"nah\", \"negatory\", etc.).",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with negatively specified information",
	"sec_num": "3.6"
	},
	{
	"text": "System:PrEP may cause weight loss, serum creatinine increase, headaches, kidney issues, mild nausea, and bone mineral density issues. Following me so far?",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with negatively specified information",
	"sec_num": "3.6"
	},
	{
	"text": "Participant: nope System: Hmmm. maybe you have a question. If you do what is the question?",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with negatively specified information",
	"sec_num": "3.6"
	},
	{
	"text": "3.7 Can the system deal with no answer to a question at all No. The system will wait for a response by the user.",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with negatively specified information",
	"sec_num": "3.6"
	},
	{
	"text": "Yes, by \"noisy\" we refer to utterances that might be indistinguishable if mis-transcribed or garbled text input.",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with noisy input",
	"sec_num": "3.8"
	},
	{
	"text": "System: Great! moving on to the next thing. PrEP may cause weight loss, serum creatinine increase, headaches, kidney issues, mild nausea, and bone mineral density issues. Following me so far?",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with noisy input",
	"sec_num": "3.8"
	},
	{
	"text": "Participant: super calif ragilistic expialido cious System: I am sorry. would you mind repeating what you said?",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with noisy input",
	"sec_num": "3.8"
	},
	{
	"text": "Participant: Yes, I follow. System: Great! moving on to the next thing...",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with noisy input",
	"sec_num": "3.8"
	},
	{
	"text": "3.9 Can the system deal with \"help\" sub-dialogs initiated by the user Yes. A relevant \"help\" example is when the system facilitates any repeat of information.",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with noisy input",
	"sec_num": "3.8"
	},
	{
	"text": "System: headache, mild nausea, and weight loss are mild reactions. Following me so far?",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with noisy input",
	"sec_num": "3.8"
	},
	{
	"text": "Participant: say that again System: headache, mild nausea, and weight loss are mild reactions. Following me so far?",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with noisy input",
	"sec_num": "3.8"
	},
	{
	"text": "3.10 Can the system deal with \"non-help\" sub-dialogs initiated by the user Yes, a \"non-help\" sub-dialogue example in our system is whenever a user has additional question that is related to the topic discussed.",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with noisy input",
	"sec_num": "3.8"
	},
	{
	"text": "System: PrEP is an antivirual drug, and it also known as Pre-exposure prophylaxis. Following me so far?",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with noisy input",
	"sec_num": "3.8"
	},
	{
	"text": "User: What are some payment options to cover PrEP?",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with noisy input",
	"sec_num": "3.8"
	},
	{
	"text": "System: That is a great question. I would recommend discussing it with your doctor for confirmation. If you have another question, I can help you further. Ask away. (System did not have an answer and provides one of the default responses.)",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with noisy input",
	"sec_num": "3.8"
	},
	{
	"text": "User: no further questions System: Great! moving on to the next thing. PrEP may cause weight loss, serum creatinine increase, headaches, kidney issues, mild nausea, and bone mineral density issues. Following me?",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with noisy input",
	"sec_num": "3.8"
	},
	{
	"text": "3.11 Does the system only ask appropriate follow-up questions",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with noisy input",
	"sec_num": "3.8"
	},
	{
	"text": "Yes. After each segment, the system inquires to the user if they have any follow-up responses to what they heard about PrEP. Example in 3.10 demonstrates this.",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with noisy input",
	"sec_num": "3.8"
	},
	{
	"text": "3.12 Can the system deal with inconsistent information",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with noisy input",
	"sec_num": "3.8"
	},
	{
	"text": "Partially yes. The system relies on example of expected utterances to identify the type of utterance using string metric similarity. This may result in misidentifying the utterance and directing the dialogue flow in unintended direction.",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Can the system deal with noisy input",
	"sec_num": "3.8"
	},
	{
	"text": "The apparent limitations of the system is highlighted by criterion 3.1, 3.6, and 3.7. The limitation with respect to context is primarily due to lack of a mechanism to handle personalized information. One of the benefits of using ontologies demonstrated by health researchers was the potential to tailor information if we were to capture user information (Bickmore et al., 2011) . Previous studies have demonstrated the use of user context ontologies to reason with user data. We assume that this component could be integrated to support personalized contextual information based on group identification or past previous behavior of the user.",
	"cite_spans": [
	{
	"start": 355,
	"end": 378,
	"text": "(Bickmore et al., 2011)",
	"ref_id": "BIBREF7"
	}
	],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Discussion",
	"sec_num": "4"
	},
	{
	"text": "Another limitation is the negatively specified information, where if a user were to ask \"What if I do not have insurance to pay for PrEP?\" Technically the system would not analyze the negative token \"not\" and focus on the more salient entities of the response. However, a response can be generated by the system, but whether it would accurately respond to the question is unknown, and is determined by the scope of the ontology.",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Discussion",
	"sec_num": "4"
	},
	{
	"text": "In regards to dealing with no answer, the system awaits for the response of the participant. The reasonable solution is to implement a software code subroutine either on the dialogue system level or on the interface level that times out whenever the user does not provide a timely response. Nonetheless, exploring how this can be done on the ontologylevel would need to be investigated and engineered into the ontology.",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Discussion",
	"sec_num": "4"
	},
	{
	"text": "Other aspects highlighted by our preliminary Trindi Tick assessment underline adherence to criteria regarding handling indistinguishable responses, sub-dialogue branches, and the quality and quantity of information. Also, the quality of the system responsiveness, we theorize, would be dependent on the scope of the knowledge encoded in the ontology.",
	"cite_spans": [],
	"ref_spans": [],
	"eq_spans": [],
	"section": "Discussion",
	"sec_num": "4"
	},
	{
	"text": "In this paper we present our ontology-based system for handling dialogue for PrEP and PEP counseling. This system also handles questions that are queried from a knowledge base, called the Ontology of PrEP and PEP (OPP). Overall the objective of this work is to demonstrate the feasibility of using an ontology-driven approach to manage automated counseling for PrEP and PEP through a computerbased agent. Figure 6 shows overall deployment on how the engine will interface with external natural language clients whether they are mobile or terminals (desktops or kiosks). Our eventual goal is to develop a deterministic, planned-based approach within the domain of PrEP and PEP medication adherence (closed domain) and test our approach with live participants. Previous research (Amith et al., 2019b) has found limited use of ontologies for medical-based dialogue agents. Solutions addressing PrEP or PEP adherence that researchers have examined include social networks (Kuhns et al., 2017; Garcia et al., 2016) and telehealth solutions (Klausner and CFAR Development Core, 2018; Youth Tech Health, 2018) . With the former, there has not been any evidence that shows that social networks can address adherence or awareness (Ezennia et al., 2019) , and with the latter, telehealth solutions are limited to the availability of a professional and may not be cost effective (Touger and Wood, 2019) . Having an automated agent that can provide real-time and high availability to counsel and inform patients may offer an alternative, but further research is needed to foresee this possibility.",
	"cite_spans": [
	{
	"start": 777,
	"end": 798,
	"text": "(Amith et al., 2019b)",
	"ref_id": "BIBREF4"
	},
	{
	"start": 968,
	"end": 988,
	"text": "(Kuhns et al., 2017;",
	"ref_id": "BIBREF23"
	},
	{
	"start": 989,
	"end": 1009,
	"text": "Garcia et al., 2016)",
	"ref_id": "BIBREF14"
	},
	{
	"start": 1035,
	"end": 1077,
	"text": "(Klausner and CFAR Development Core, 2018;",
	"ref_id": null
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	{
	"start": 1078,
	"end": 1102,
	"text": "Youth Tech Health, 2018)",
	"ref_id": null
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	"start": 1221,
	"end": 1243,
	"text": "(Ezennia et al., 2019)",
	"ref_id": "BIBREF13"
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	"start": 1368,
	"end": 1391,
	"text": "(Touger and Wood, 2019)",
	"ref_id": "BIBREF32"
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	],
	"ref_spans": [
	{
	"start": 405,
	"end": 413,
	"text": "Figure 6",
	"ref_id": "FIGREF6"
	}
	],
	"eq_spans": [],
	"section": "Conclusion",
	"sec_num": "5"
	},
	{
	"text": "Limitations and Future Direction The ontologies that drive the system are currently in draft format and additional work is needed to expand them to include more personalized content, such as where PrEP and PEP can be obtained and information for nonprofit organizations that can provide support, etc. Researchers have conducted simulations to fine tune a formal plan to counsel individuals on the HPV vaccine. Our future work would need to model standard practices for medication counseling adherence that typically happen between patients and providers. This would include conducting simulation studies and working with providers to develop, and then model the counseling flow using the PHIDO framework. Also, from the sample dialogue of the simulation, we can parse out potential questions that can be used to test the question answering component. Lastly, the demonstration of our work is based on text-based modality, and we are working towards interfacing the system to a voice interface to capture the user utterances and evoke the utterance of the machine.",
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	"ref_spans": [],
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	"section": "Conclusion",
	"sec_num": "5"
	}
	],
	"back_matter": [],
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	"FIGREF0": {
	"text": "UML diagram of the Utterance class in PHIDO. System and Participant are subclasses of Utterance.",
	"uris": null,
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	},
	"FIGREF1": {
	"text": "Triples (Predicates) are extracted from the Ontology of PrEP and PEP and used by PHIDO.",
	"uris": null,
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	},
	"FIGREF2": {
	"text": "Dialogue flow plan for basic counseling for PrEP and PEP information.",
	"uris": null,
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	},
	"FIGREF3": {
	"text": "Demonstration of the dialogue engine communicating PrEP information to the user.Monge and Elkan, 1997) (default implementation from Korstanje (2019)), and a default threshold of 0.85. Matches that do not meet the threshold will fallback to exact string matches based on the beginning of the string.",
	"uris": null,
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	"num": null
	},
	"FIGREF4": {
	"text": "Definition 2.1 (Participant utterance & examples).",
	"uris": null,
	"type_str": "figure",
	"num": null
	},
	"FIGREF5": {
	"text": "Demonstration of the a PrEP-related question asked with corresponding answers provided. The ranking scores are provided for supplement.",
	"uris": null,
	"type_str": "figure",
	"num": null
	},
	"FIGREF6": {
	"text": "Deployment of a conversational agent client as a mobile application.",
	"uris": null,
	"type_str": "figure",
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	},
	"TABREF0": {
	"text": "Within an ontology O, there are assertion triples (ABox) that are composed of elements of subject s n , predicate p n , and object o n to form an assertion triple spo n . spo = {s, p, o} Definition 2.6 (Essential Ontology Triples). Given an target ontology O, there are a subset of triple assertion types spo o , spo d , spo c (object property assertions, data property assertions, and class assertions) that are needed O for the subsystem. T S is derived from the mean of computing similarity between N P n with s , and from V P n with p {o,d,c} n . Q \u2248 spo{o,d,c} n",
	"content": "<table><tr><td>the similarity of question data D with a triple as-</td></tr><tr><td>sertion spo from O'. {o,d,c} {o,d,c} n n {o,d,c} and o n</td></tr><tr><td>O \u2208 {spo o n , spo d n , spo c n }</td></tr><tr><td>Definition 2.7 (Assign Score From Comparison).</td></tr><tr><td>A similarity score T S is assigned from comparing</td></tr></table>",
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	}