Dowha Lee

Sangyeon Kim

Taehyun Ha

Junhyuk Lee

Hyewon Yoon

Changho Lee

Inheon Choi

Jeongmin Jo

Hwiseong Kim

Jeonguk Hong

Seoyoon Jung

Seohyun Kwon

Jiwon Park

Sanghyeok Boo

Jieun Park

Insil Huh

Woochan Kim

Yujin Park

Hyojung Kim

Jaeeun Shin

Gyeongbin Park

Yerin Lee

Soyeon Shin

Seungseb Lee

Sunyoung Ahn

Donghak Seo

Namkyoo Kang

Jihye Han

Naeun Lee

Dasom Lee

Hyunji Baek

Taekyu Kim

Jihye Lee

Song Jung

Narae Kim

Hyunjung Ahn

고려대학교 산업경영공학부 ID Square(Interaction Design and Development) 연구실은
사람과 인공지능 시스템 간의 상호작용을 연구하는
Human-AI Interaction
이라는 주제를 중심으로
인공지능, 인간-컴퓨터 상호작용(HCI), 심리학 등 여러 학문 분야를 융합적으로 연구하고 있습니다.
문제 정의와 해결 과정에 있어
공학/인문사회학/디자인학
적 방법을 모두 활용하고 있으며
Human-AI Interaction이라는 주제 아래 참여 연구원들의 독립적이고 다양한 형태의 연구가 모여
종합적 인사이트
를 도출하는 것을 목표하고 있습니다.

Same Robot, Different You: User Personality and Robot Role Effects in Large Language Model-Based Mobile Home Robot Interaction

Enhancing Serendipity by Incorporating User Control of Social Information in a Recommender System

Toward Situation Awareness-Supportive In-Vehicle Agent Design for Collaborative Driving: Effects of Transparency and Visual Representation

Exploring Personalized Explanation Methods in Fintech Decision-Making Chatbot based on User Characteristics using Large Language Model

Design Recommendations for a Smart TV Interface Supporting Co-viewing Based on Users’ Mental Models of Content Browsing and Its User Evaluation

Find Your Social Match, Discover What to Watch: The Role of Social Profiles and Explanations in Recommender Systems

Exploring the mental model of web page scraping: Design suggestion of an AI-powered in-browser scrap tool and its usability evaluation

Balancing Diversity in Session-based Recommendation between Relevance and Unexpectedness

Enhancing passenger-vehicle interaction through multimodal explanation for unexpected behaviors of fully autonomous driving in non-driving-related tasks

Investigating Impact of Situation Awareness-based Displays of Semi-Autonomous driving in urgent situations

Interactive feedback loop with counterfactual data modification for serendipity in a recommendation system

Why majorities are silent but minorities are loud: An empirical approach to opinion interactions in online communities

Spatio-temporal explanation of 3D-EEGNet for motor imagery EEG classification using permutation and saliency

Effectiveness of multi-task deep learning framework for EEG-based emotion and context recognition

Investigating Effects of Multimodal Explanations Using Multiple In-vehicle Displays for Takeover Request in Conditionally Autonomous Driving

Designing an XAI interface for BCI experts: A contextual design for pragmatic explanation interface based on domain knowledge in a specific context

Touchable pixels: Examining the affordance effect between an on-screen object and a user-elicited gesture on the touchscreeen

No Movie to Watch: A Design Strategy for Enhancing Content Diversity through Social Recommendation in the Subscription-Video-On-Demand Service

Examining the effects of power status of an explainable artificial intelligence system on users’ perceptions

Investigating media-user interaction for public play space in a smart city

Examination of Bitcoin exchange through agent-based modeling: Focusing on the perceived fundamental of Bitcoin

A heterophenomenological framework for analyzing user experiences with affordances

Effects of visual and auditory cues on haptic illusions for active and passive touches in mixed reality

Effects of visual cues on distance perception in virtual environments based on object identification and visually guided action

Effects of explanation types and perceived risk on trust in autonomous vehicles

Functional electrical stimulation controlled by motor imagery brain-computer interface for rehabilitation

Perceiving a mind in a chatbot: Effect of mind perception and social cues on co-presence, closeness, and intention to use

Smash the dichotomy of skeuomorphism and flat design: Designing an affordable interface to correspond with the human perceptuomotor process

Development of an approach to measuring learnability based on NGOMSL from perspectives of extended learnability

This autonomous vehicle is your own comfortable place!, Examination of the influential factors for intention-to-use autonomous vehicles

Development of a new approach to measuring learnability based on NGOMSL from perspectives of extended learnability

Changes in perceived usability and aesthetics with repetitive use in the first use session

Improving usability perception of error-prone AI speakers: Elaborated feedback mitigates negative consequences of errors

Semantic network analysis for understanding user experiences of bipolor and depressive disorders on Reddit

A new approach to efficient ratio: A case of South Korea’s research and development investment

Community disaster resilience and social solidarity on social media: A semantic network analysis on the Sewol Ferry disaster

Understanding the majority opinion formation process in online environments: An exploratory approach to Facebook

Finger gesture input utilizing the rear camera of a mobile phone in the CAD context

Examining user perceptions of smartwatch through dynamic topic modeling

Reciprocal nature of social capital in Facebook: An analysis of tagging activity

Item-network-based collaborative filtering: A personalized recommendation method based on a user’s item network

Analysis on the evolution and innovation of online game industry using meta-frontier analysis

User satisfaction and retention of mobile telecommunications services in Korea

Effects of perceived usability and aesthetics on emotional responses in different contexts of use

Development of a resource allocation modeling using competitive advantage

A hybrid multi-criteria decision-making model for a cloud service selection problem using BSC, Fuzzy Delphi Method and Fuzzy AHP

Can autonomous vehicles be safe and trustworthy? Effects of appearance and autonomy of unmanned driving systems

Network management in the era of covergence: Focusing on application-based quality assessment of Internet access service

Design strategies for idle screens of smartphones based on service usages

User behavior model based on affordances and emotions: A new approach for an optimal use method in product-user interactions

Users’ emotional valence, arousal, engagement based on perceived usability and aesthetics for web sites

아이템 속성 기반 필터링과 검색증강생성을 결합한 정보 검색 시스템 프레임워크

스마트홈 자동화 환경에서 LLM 기반 선제적 에이전트에 대한 사용자 경험 연구

AI 기반 투자 의사결정 지원 챗봇에서 AI의 결과에 대한 설명 방법과 사용자의 위험 감수 수준의 영향 분석

멀티플레이어 온라인 배틀 아레나에서의 비언어적 의사소통 시스템 개선을 위한 멘탈 모델 개발 -리그오브레전드 핑 시스템을 중심으로-

데이터의 편향성이 인공지능 모델 결과에 미치는 영향에 대한 정량적 분석

UX Scene의 가치 요소 도출을 위한 미래 자동차 UX 분석 모델 제안

고객 서비스 챗봇의 사회적 실재감이 서비스 품질과 사용자 인식에 미치는 영향

사용 컨텍스트별 리뷰 분석 기반의 모바일 헬스 앱 디자인 전략 연구

시각장애인의 미술 작품 감상 시 정보 획득 요구 분석

학습용 에이전트의 매력도가 문제풀이 관련 학습 동기와 끈기에 미치는 영향

시각장애인의 의류 색상 인지를 위한 색상의 명도 및 채도와 촉감 재질감의 연관성 탐구

시각장애인의 미술작품 감상 접근성을 높이는 다중감각 인터랙션 설계 및 평가

반 사실적 설명을 사용한 인공지능 시스템 설명 인터페이스 개발

시각장애인의 길 탐색을 위한 대화형 인터랙티브 촉각 지도 개발

아웃링크 뉴스 제공 언론사에 대한 사용자 경험 분석 및 개선 방안 논의

엣지-클라우드 협업 기반 인터랙티브 사이니지 제공 플랫폼

가상 발전소의 기능적 특징을 고려한 사용자 중심 LDS 인터페이스 디자인

모바일 기반 챗봇 인터페이스의 상호작용성과 사용 모드가 사용자 경험에 미치는 영향

가상현실을 활용한 운동에서 환경 조건에 의해 발생하는 회복 효과에 대한 연구

차량 공유 서비스에 대한 영향요소 연구: B2C와 C2C 간 차이를 중심으로

IBB 기반 적응적 컴패니언 스크린 컨텐츠 제공 플랫폼 설계 및 구현

소셜 미디어에서의 양면 시장 구조에 대한 게이미피케이션의 영향력 분석

사물인터넷 플랫품 상의 협력적 환경 구축

사물인터넷 환경에서의 서비스 품질 평가 모델 제안

재생 정보 기반 우연성 지향적 음악 추천에 관한 연구

제품 설계 속성과 사용자 특성 간 관계에 근거한 동적 인간 행동 모델의 개발

Targeted peptide measurements in biology and medicine: best practices for mass spectrometry-based assay development using a fit-for-purpose approach

Proteogenomic characterization of human early-onset gastric cancer

Direct mass spectrometric analysis of intact proteins of the yeast large ribosomal subunit using capillary LC/FTICR

Freeze-dried biomolecules: FT-ICR studies of the specific solvation of functional groups and clathrate formation observed by the slow evaporation of water from hydrated …

Lipid raft proteome reveals ATP synthase complex in the cell surface

Salt bridge chemistry applied to gas-phase peptide sequencing: selective fragmentation of sodiated gas-phase peptide ions adjacent to aspartic acid residues

Preparation and characterization of chemically functionalized silica-coated magnetic nanoparticles as a DNA separator

A mitochondrial DNA variant at position 16189 is associated with type 2 diabetes mellitus in Asians

High-throughput peptide identification from protein digests using data-dependent multiplexed tandem FTICR mass spectrometry coupled with capillary liquid chromatography

High-throughput global peptide proteomic analysis by combining stable isotope amino acid labeling and data-dependent multiplexed-MS/MS

Shot-gun proteomic analysis of mitochondrial D-loopDNA bindingproteins: identification of mitochondrial histones

A serum protein profile predictive of the resistance to neoadjuvant chemotherapy in advanced breast cancers

Selective binding of crown ethers to protonated peptides can be used to probe mechanisms of H/D exchange and collision-induced dissociation reactions in the gas phase

A protein profile of visceral adipose tissues linked to early pathogenesis of type 2 diabetes mellitus

Plasma membrane calcium ATPase regulates bone mass by fine-tuning osteoclast differentiation and survival

Gas-phase H/D exchange of sodiated glycine oligomers with ND3: exchange kinetics do not reflect parent ion structures

Highly informative proteome analysis by combining improved N ‐terminal sulfonation for de novo peptide sequencing and online capillary reverse‐phase liquid …

PTRF/cavin-1 is essential for multidrug resistance in cancer cells

Pressurized pepsin digestion in proteomics: an automatable alternative to trypsin for integrated top-down bottom-up proteomics

Evaluating the effect of database inflation in proteogenomic search on sensitive and reliable peptide identification

Daehee Hwang

Richard D Smith

J. L. Beauchamp

Min-Sik Kim, Ph.D.

Ljiljana Pasa-Tolic

Eunok Paek

Kyong Soo Park

Yufeng Shen, Ph.D.

Daniel Lopez Ferrer

Kwangyeol Lee

Jungbae Kim

Christophe Masselon

Hyun Sik Kim

Jeong Ho Chang

Jae-Sung Yi

Lingjun Li

Ronald J. Moore

Hui Zhang

Ryan R. Julian

Matthew E. Monroe

Sangwon Lee

Adoption of targeted mass spectrometry (MS) approaches such as multiple reaction monitoring (MRM) to study biological and biomedical questions is well underway in the proteomics community. Successful application depends on the ability to generate reliable assays that uniquely and confidently identify target peptides in a sample. Unfortunately, there is a wide range of criteria being applied to say that an assay has been successfully developed. There is no consensus on what criteria are acceptable and little understanding of the impact of variable criteria on the quality of the results generated. Publications describing targeted MS assays for peptides frequently do not contain sufficient information for readers to establish confidence that the tests work as intended or to be able to apply the tests described in their own labs. Guidance must be developed so that targeted MS assays with established performance can be …

We report proteogenomic analysis of diffuse gastric cancers (GCs) in young populations. Phosphoproteome data elucidated signaling pathways associated with somatic mutations based on mutation-phosphorylation correlations. Moreover, correlations between mRNA and protein abundances provided potential oncogenes and tumor suppressors associated with patient survival. Furthermore, integrated clustering of mRNA, protein, phosphorylation, and N-glycosylation data identified four subtypes of diffuse GCs. Distinguishing these subtypes was possible by proteomic data. Four subtypes were associated with proliferation, immune response, metabolism, and invasion, respectively; and associations of the subtypes with immune- and invasion-related pathways were identified mainly by phosphorylation and N -glycosylation data. Therefore, our proteogenomic analysis provides additional information beyond genomic …

Electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry coupled with capillary reverse-phase liquid chromatography was used to characterize intact proteins from the large subunit of the yeast ribosome. High mass measurement accuracy, achieved by “mass locking” with an internal standard from a dual electrospray ionization source, allowed identification of ribosomal proteins. Analyses of the intact proteins revealed information on cotranslational and posttranslational modifications of the ribosomal proteins that included loss of the initiating methionine, acetylation, methylation, and proteolytic maturation. High-resolution separations permitted differentiation of protein isoforms having high structural similarity as well as proteins from their modified forms, facilitating unequivocal assignments. The study identified 42 of the 43 core large ribosomal subunit proteins and 58 (of 64 possible) core …

Solvent evaporation from extensively hydrated peptides and selected model compounds formed by electrospray ionization has been examined using an external ion source Fourier transform ion cyclotron resonance (FT-ICR) mass spectrometer. Water evaporation from the clusters, formed at room temperature by appropriate operation of an electrospray ion source, is initially rapid and results in evaporative cooling of the clusters to a temperature around 130−150 K, determined by the balance between evaporative cooling and heating by background blackbody radiation. In this “freeze-drying” process, it is observed that the kinetics of solvent evaporation and the cluster size distributions are highly dependent on the nature of the core ion in the cluster. In agreement with earlier studies of the hydrated proton, pure water clusters exhibit special stability characteristic of clathrate formation where, for example, a hydronium …

Since detergent‐resistant lipid rafts are involved in pathogen invasion, cholesterol homeostasis, angiogenesis, neurodegenerative diseases and signal transduction, protein identification in the rafts could provide important information to study their function. Here, we analyzed detergent‐resistant raft proteins isolated from rat liver by capillary liquid chromatography‐tandem mass spectrometry. Out of 196 proteins identified, 32% belonged to the raft or plasma membrane, 24% to mitochondrial, 20% to microsomal, 7% to miscellaneous, and 17% are unknown proteins. For example, membrane‐bound receptors, trimeric GTP‐binding proteins, ATP‐binding cassette transporters, and glycosylphosphatidylinositol‐anchored proteins were identified in this analysis. Unexpectedly, there were many mitochondrial proteins, raising a new issue for the presence of mitochondrial rafts or the localization of mitochondrial proteins …

Salt bridge chemistry has recently been realized as a determining factor in the structures and reaction dynamics of biological molecules in the gas phase. In this paper, we further investigate salt bridge chemistry in studies of the low-energy collision-induced dissociation (CID) of sodiated peptides. MALDI and electrospray ionization are used to generate singly and multiply charged sodiated peptides which are analyzed by using an external ion source Fourier transform ion cyclotron resonance mass spectrometer. Of particular interest is the observation that sodiated peptides exhibit highly selective cleavage at aspartic acid residues. Sodiated peptides that lack acidic residues, however, undergo sequential cleavages from the C-terminus on low-energy CID. We propose a mechanism for cleavage at aspartic acid residues that involves a salt bridge intermediate in which the sodium ion stabilizes the ion pair formed by …

The work describes a simple and convenient process for highly efficient and direct DNA separation with functionalized silica-coated magnetic nanoparticles. Iron oxide magnetic nanoparticles and silica-coated magnetic nanoparticles were prepared uniformly, and the silica coating thickness could be easily controlled in a range from 10 to 50 nm by changing the concentration of silica precursor (TEOS) including controlled magnetic strength and particle size. A change in the surface modification on the nanoparticles was introduced by aminosilanization to enhance the selective DNA separation resulting from electrostatic interaction. The efficiency of the DNA separation was explored via the function of the amino-group numbers, particle size, the amount of the nanoparticles used, and the concentration of NaCl salt. The DNA adsorption yields were high in terms of the amount of triamino-functionalized nanoparticles …

Aims/hypothesis This multinational study was conducted to investigate the association between a mitochondrial DNA (mtDNA) T16189C polymorphism and type 2 diabetes in Asians. The mtDNA 16189C variant has been reported to be associated with insulin resistance and type 2 diabetes. However, a recent meta-analysis concluded that it is negatively associated with type 2 diabetes in Europids. Since the phenotype of an mtDNA mutant may be influenced by environmental factors and ethnic differences in the nuclear and mitochondrial genomes, we investigated the association between the 16189C variant and type 2 diabetes in Asians. Methods The presence of the mtDNA 16189C variant was determined in 2,469 patients with type 2 diabetes and 1,205 non-diabetic individuals from Korea, Japan, Taiwan, Hong Kong and China. An additional meta-analysis including previously published Asian studies was …

Tandem mass spectrometry (MS/MS) plays an important role in the unambiguous identification and structural elucidation of biomolecules. In contrast to conventional MS/MS approaches for protein identification where an individual polypeptide is sequentially selected and dissociated, a multiplexed-MS/MS approach increases throughput by selecting several peptides for simultaneous dissociation using either infrared multiphoton dissociation (IRMPD) or multiple frequency sustained off-resonance irradiation (SORI) collisionally induced dissociation (CID). The high mass measurement accuracy and resolution of FTICR combined with knowledge of peptide dissociation pathways allows the fragments arising from several different parent ions to be assigned. Herein we report the application of multiplexed-MS/MS coupled with on-line separations for the identification of peptides present in complex mixtures (i.e., whole cell …

In this work, we describe the application of a stable isotope amino acid (lysine) labeling in conjunction with data-dependent multiplexed tandem mass spectrometry (MS/MS) to facilitate the characterization and identification of peptides from proteomic (global protein) digests. Lysine auxotrophic yeast was grown in the presence of 13 C-labeled or unlabeled lysine and combined after harvesting in equal proportions. Endoproteinase LysC digestion of the cytosolic fraction produced a global proteomic sample, consisting of heavy/light labeled peptide pairs. Then data-dependent multiplexed-MS/MS was applied to simultaneously select and dissociate only labeled peptide ion pairs. The approach allows differentiation between N-terminal (e.g., b-type ions) and C-terminal fragment ions (e.g., y-type ions) in resulting tandem mass spectra, as well as the capability of differentiation between near-isobaric glutamine and lysine …

Transcription and replication of mitochondrial DNA (mtDNA) are regulated by nuclear DNA-encoded proteins that are targeted into mitochondria. A decrease in mtDNA copy number results in mitochondrial dysfunction, which may lead to insulin resistance and metabolic syndromes. We analyzed mitochondrial proteins that physically bind to human mitochondrial D-loopDNA using a shot-gun proteomics approach following protein enrichment by D-loopDNA-linked affinity chromatography. A total of 152 D-loopDNA bindingproteins were identified by peptide sequencing using ultra high pressure capillary reverse-phase liquid chromatography/tandem mass spectrometry. Bioinformatic analysis showed that 68 were mitochondrial proteins, 96 were DNA/RNA/protein bindingproteins and 114 proteins might form a complex via protein–protein interactions. Histone family members of H1, H2A, H2B, H3, and H4, were …

Prediction of the responses to neoadjuvant chemotherapy (NACT) can improve the treatment of patients with advanced breast cancer. Genes and proteins predictive of chemoresistance have been extensively studied in breast cancer tissues. However, noninvasive serum biomarkers capable of such prediction have been rarely exploited. Here, we performed profiling of N -glycosylated proteins in serum from fifteen advanced breast cancer patients (ten patients sensitive to and five patients resistant to NACT) to discover serum biomarkers of chemoresistance using a label-free liquid chromatography-tandem MS method. By performing a series of statistical analyses of the proteomic data, we selected thirteen biomarker candidates and tested their differential serum levels by Western blotting in 13 independent samples (eight patients sensitive to and five patients resistant to NACT). Among the candidates, we then …

Selective binding of crown ethers to model protonated peptides is utilized to study the site selectivity and mechanisms of gas-phase hydrogen/deuterium exchange reactions with ND 3 in an external ion source FT-ICR mass spectrometer. Mechanisms for H/D exchange reactions in the gas phase can be classified into two different types: Type I involving direct participation of the labile protons at the charge site and Type II in which the charge site at most plays only an ancillary role in the process (e.g., salt bridge formation). Localization of the labile proton at the charge site by crown ether attachment inhibits Type I processes, as evidenced by a dramatic reduction in the rates of H/D exchange. For example, crown ether attachment to protonated ethylenediamine and 1,4-diaminobutane inhibits H/D exchange reactions, while the free protonated species undergo rapid exchange of all five labile hydrogens. Type II …

Adipose tissue is increasingly recognized as an endocrine organ playing important pathophysiological roles in metabolic abnormalities, such as obesity, cardiovascular disease, and type 2 diabetes mellitus (T2DM). In particular, visceral adipose tissue (VAT), as opposed to subcutaneous adipose tissue, is closely linked to the pathogenesis of insulin resistance and T2DM. Despite the importance of VAT, its molecular signatures related to the pathogenesis of T2DM have not been systematically explored. Here, we present comprehensive proteomic analysis of VATs in drug-naïve early T2DM patients and subjects with normal glucose tolerance. A total of 4,707 proteins were identified in LC-MS/MS experiments. Among them, 444 increased in abundance in T2DM and 328 decreased. They are involved in T2DM-related processes including inflammatory responses, peroxisome proliferator-activated receptor signaling …

The precise regulation of Ca 2+ dynamics is crucial for proper differentiation and function of osteoclasts. Here we show the involvement of plasma membrane Ca 2+ ATPase (PMCA) isoforms 1 and 4 in osteoclastogenesis. In immature/undifferentiated cells, PMCAs inhibited receptor activator of NF-κB ligand–induced Ca 2+ oscillations and osteoclast differentiation in vitro. Interestingly, nuclear factor of activated T cell c1 (NFATc1) directly stimulated PMCA transcription, whereas the PMCA-mediated Ca 2+ efflux prevented NFATc1 activation, forming a negative regulatory loop. PMCA4 also had an anti-osteoclastogenic effect by reducing NO, which facilitates preosteoclast fusion. In addition to their role in immature cells, increased expression of PMCAs in mature osteoclasts prevented osteoclast apoptosis both in vitro and in vivo. Mice heterozygous for PMCA1 or null for PMCA4 showed an osteopenic phenotype with …

H/D exchange is a method commonly used to probe molecular structure. The majority of studies in the gas phase have involved protonated molecular ions. The present study gives attention to molecular ions formed by coordination with a sodium ion. In particular, ND 3 is reacted with sodiated glycine oligomers, Gly n , where n = 1−5, and the results are interpreted using density functional calculations. Experimentally, Gly 1 Na + , Gly 4 Na + , and Gly 5 Na + all undergo three fast exchanges with ND 3 , while Gly 2 Na + and Gly 3 Na + undergo one fast and two slow exchanges with ND 3 . The methyl esters Gly 3 OMeNa + and Gly 5 OMeNa + do not exchange with ND 3 . In agreement with earlier experimental studies, theoretical calculations show that the lowest-energy conformers of the sodiated glycine oligomers are charge-solvated structures. Calculations further indicate that, in the process of H/D exchange with ND 3 , sodiated …

Recently, various chemical modifications of peptides have been incorporated into mass spectrometric analyses of proteome samples, predominantly in conjunction with matrix‐assisted laser desorption/ionization mass spectrometry (MALDI MS), to facilitate de novo sequencing of peptides. In this work, we investigate systematically the utility of N ‐terminal sulfonation of tryptic peptides by 4‐sulfophenyl isothiocyanate (SPITC) for proteome analysis by capillary reverse‐phase liquid chromatography/tandem mass spectrometry (cRPLC/MS/MS). The experimental conditions for the sulfonation were carefully adjusted so that SPITC reacts selectively with the N ‐terminal amino groups, even in the presence of the ϵ‐amino groups of lysine residues. Mass spectrometric analyses of the modified peptides by cRPLC/MS/MS indicated that SPITC derivatization proceeded toward near completion under the experimental …

Since detergent-resistant lipid rafts play important roles in multidrug resistance (MDR), their comprehensive proteomics could provide new insights to understand the underlying molecular mechanism of MDR in cancer cells. In the present work, lipid rafts were isolated from MCF-7 and adriamycin-resistant MCF-7/ADR cells and their proteomes were analyzed by label-free quantitative proteomics. Polymerase I and transcript release factor (PTRF)/cavin-1 was measured to be upregulated along with multidrug-resistant P-glycoprotein, caveolin-1, and serum deprivation protein response/cavin-2 in the lipid rafts of MCF-7/ADR cells. PTRF knockdown led to reduction in the amount of lipid rafts on the surface of MCF7/ADR cells as determined by cellular staining with lipid raft-specific dyes such as S-laurdan2 and FITC-conjugated cholera toxin B. PTRF knockdown also reduced MDR in MCF-7/ADR cells. These data …

Integrated top-down bottom-up proteomics combined with on-line digestion has great potential to improve the characterization of protein isoforms in biological systems and is amendable to high throughput proteomics experiments. Bottom-up proteomics ultimately provides the peptide sequences derived from the tandem MS analyses of peptides after the proteome has been digested. Top-down proteomics conversely entails the MS analyses of intact proteins for more effective characterization of genetic variations and/or post-translational modifications. Herein, we describe recent efforts toward efficient integration of bottom-up and top-down LC-MS-based proteomics strategies. Since most proteomics separations utilize acidic conditions, we exploited the compatibility of pepsin (where the optimal digestion conditions are at low pH) for integration into bottom-up and top-down proteomics work flows. Pressure-enhanced …

Background Proteogenomics is a promising approach for various tasks ranging from gene annotation to cancer research. Databases for proteogenomic searches are often constructed by adding peptide sequences inferred from genomic or transcriptomic evidence to reference protein sequences. Such inflation of databases has potential of identifying novel peptides. However, it also raises concerns on sensitive and reliable peptide identification. Spurious peptides included in target databases may result in underestimated false discovery rate (FDR). On the other hand, inflation of decoy databases could decrease the sensitivity of peptide identification due to the increased number of high-scoring random hits. Although several studies have addressed these issues, widely applicable guidelines for sensitive and reliable proteogenomic search have hardly been available. Results To systematically evaluate the effect of …

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교수님 소개

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알럼나이가 간 회사

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저널 & 학회 논문 출판 수

연구실 논문 목록

Find Your Social Match, Discover What to Watch: The Role of Social Profiles and Explanations in Recommender Systems

Exploring the mental model of web page scraping: Design suggestion of an AI-powered in-browser scrap tool and its usability evaluation

Balancing Diversity in Session-based Recommendation between Relevance and Unexpectedness

연구실 보유 특허

대학별 입시끈

우리 연구실 모집

교수님 소개

이상원

연구실 키워드

알럼나이가 간 회사

연구실 지원 방법

대우 조건

연도별 논문 인용수

저널 & 학회 논문 출판 수

연구실 논문 목록

Find Your Social Match, Discover What to Watch: The Role of Social Profiles and Explanations in Recommender Systems

Exploring the mental model of web page scraping: Design suggestion of an AI-powered in-browser scrap tool and its usability evaluation

Balancing Diversity in Session-based Recommendation between Relevance and Unexpectedness

연구실 보유 특허

최근 3년간 연구실적 높은 연구실

대학별 입시끈

우리 연구실 모집