Comparative interactomics analysis of protein family interaction networks using PSIMAP (protein structural interactome map)

Park, Daeui,Lee, Semin,Bolser, Dan,Schroeder, Michael,Lappe, Michael,Oh, Donghoon,Bhak, Jong Oxford University Press 2005 Bioinformatics Vol.21 No.15

<P><B>Motivation:</B> Many genomes have been completely sequenced. However, detecting and analyzing their protein–protein interactions by experimental methods such as co-immunoprecipitation, tandem affinity purification and Y2H is not as fast as genome sequencing. Therefore, a computational prediction method based on the known protein structural interactions will be useful to analyze large-scale protein–protein interaction rules within and among complete genomes.</P><P><B>Results:</B> We confirmed that all the predicted protein family interactomes (the full set of protein family interactions within a proteome) of 146 species are scale-free networks, and they share a small core network comprising 36 protein families related to indispensable cellular functions. We found two fundamental differences among prokaryotic and eukaryotic interactomes: (1) eukarya had significantly more hub families than archaea and bacteria and (2) certain special hub families determined the topology of the eukaryotic interactomes. Our comparative analysis suggests that a very small number of expansive protein families led to the evolution of interactomes and seemed tohave played a key role in species diversification.</P><P><B>Contact:</B> jong@kribb.re.kr</P><P><B>Supplementary information:</B> http://interactomics.org</P>

Damage-free surface treatment of polyethersulfone films using magnetized plasma generated by low-frequency (60 Hz) power

Bhak, Jong-Goo,Kim, Hong Tak,Kim, Chan,Rhee, Ilsu Informa UK (TaylorFrancis) 2017 Molecular Crystals and Liquid Crystals Vol.645 No.1

<P>Surface treatments of polyethersulfone (PES) films were performed using the magnetized plasma generated by low-frequency (60Hz) power for applying them to the flexible substrates of solar cells and electronic displays. The contact angle between the water droplet and PES films was observed to change from 80 degrees to 30 degrees after the plasma treatment. This indicates that the surface of the PES films changed from hydrophobic to hydrophilic. The surface roughness of the films did not change after the plasma treatment, and this indicates that the magnetized plasma did not damage the surface of the films. The trapping of energetic particles by the magnetic field is thought to be responsible for this result. It is concluded that the plasma treatment by using the magnetized plasma is useful for the surface modification of the polymeric materials suitable for flexible substrates of solar cells and electronic displays.</P>

Genome analysis on very large amount of genome data from next generation sequencers

Jong Bhak 한국응용곤충학회 2009 한국응용곤충학회 학술대회논문집 Vol.2009 No.10

Personal Genomics, Bioinformatics, and Variomics

Bhak, Jong,Ghang, Ho,Reja, Rohit,Kim, Sang-Soo Korea Genome Organization 2008 Genomics & informatics Vol.6 No.4

In 2008 at least five complete genome sequences are available. It is known that there are over 15,000,000 genetic variants, called SNPs, in the dbSNP database. The cost of full genome sequencing in 2009 is claimed to be less than $5000 USD. The genomics era has arrived in 2008. This review introduces technologies, bioinformatics, genomics visions, and variomics projects. Variomics is the study of the total genetic variation in an individual and populations. Research on genetic variation is the most valuable among many genomics research branches. Genomics and variomics projects will change biology and the society so dramatically that biology will become an everyday technology like personal computers and the internet. 'BioRevolution' is the term that can adequately describe this change.

Bioinformatics Support for Korean Brassica rapa Genome Project by KOBIC in Collaboration with NIAB

Jong Bhak 한국육종학회 2007 한국육종학회 학술발표회 발표요지 Vol.38 No.1

Cell Cycle and Apoptosis of Bovine Fetal Fibroblast Cells following Different Activation Treatments

Jong-Sik Bhak,Sang-yong Choe 한국동물번식학회 2002 Reproductive & Developmental Biology(Supplement) Vol.26 No.1s

Next generation bio-data based genome research and commercialization : GiSys

Jong Hwa BHAK 한국생물공학회 2012 한국생물공학회 학술대회 Vol.2012 No.9

Cell Cycle and Apoptosis of Bovine Fetal Fibroblast Cells following Different Activation Treatments

Jong-Sik Bhak,Sang-yong Choe 한국동물생명공학회(구 한국동물번식학회) 2002 Reproductive & developmental biology Vol.26 No.1

개인유전체 시대의 유전정보의 이용과 법적 문제

박종화 ( Jong Bhak ) 한남대학교 과학기술법연구원 2006 과학기술법연구 Vol.11 No.1

Before 2010, human societies will meet the personal genomics era. Each individual will have his/her own genome sequences completely sequenced. The use of such massive private information has several legal implications. One is the patents of genes. Who can own the patents right while every human being has such genes in his/her genome? Another issue is how much intervention a nation can have over individual genome information. Can a nation own and manage her people`s genome information? For science and technology to develop fast, it will be necessary for public organizations maintain the databases and tools for handling genome information. Other issues are ethics in the use of such genome information. The past and present trend clearly show that the main driving force of enhancing science is money. The financial gains from scientific and technological knowledge will dominate the future direction of genome research and legal issues will be of economy problems in the society. The best approach of handling legal issues related to genomic and genetic information is to segregate the inherent social problems from inefficient management from the technical and scientific problems. Most social conflicts are not from the technology itself, but the management and distribution system of the resource and knowledge. Genomic data can bring social and legal problems but the essence is not in science but in the management of the society. A progressive and proactive bills should be forwarded to the society if there have to be restrictions and regulations on the use of genome information. This is because the idea of private genetic data is false. Individuals share nearly the same information with other social members in terms of genome. Genome information can not be personal, therefore, the concept of protecting private genetic information is not practical. Compared to social inequality found among disabled and different ethnic groups, genetic inequality is a minor problem in the next decades.

자연치유 관점에서 동서양의 건강 진단법에 대한 비교분석

박진영(Bhak Jin Young),오정숙(Oh Jeong Suk),장석종(Jang Seok Jong) 한국자연치유교육학회 2019 자연치유교육학회지 Vol.3 No.1

서양의학과 동양의학의 기본적 개념을 보면 서양의학은 인체를 기관과 조직, 혈액, 그리고 림프액 등으로 세분화시켜서 관찰하고, 병소(병이 있는 부분)의 국소적인 부분을 중심으로 분석하여 치료한다. 진단검사는 환자로부터 채취한 혈액, 소변, 대변, 체액 및 조직 등의 검체를 이용하여 질병의 진단과 경과 관찰, 치료 및 예후 판정 등에 관련된 검사를 시행하고 해석하는 것을 중심으로 한다. 측정, 검출 대상에 따라서 혈액 일반검사, 혈액응고, 섬유소용해검사, 혈액 생화학검사, 면역혈청검사, 호르몬검사, 종양마커, 병리검사, 소변검사, 대변검사 등이 있다. 또한 다양한 기계를 사용하여 직접 몸의 기능을 조사하는 검사를 시행하고 있다. 주요 검사로는 생리학적 검사, x선 검사, CT, MRI, PET, 초음파 검사 등이 있다. 이 외에도 다양한 진단검사들이 있다. 이에 비해 동양의학은 병소만을 보는 것이 아니라, 인체를 전신이 서로 연결된 하나의 유기체로서 본다. 따라서 동양의학에서는 국소적인 치료도 하지만, 전체적인 균형을 고려하면서 치료하는 것이 특징이라 할 수 있다. 동양의학에서 질병을 진단하는 일반적인 방법으로 한의학에서 정의한 사진법을 주요한 진단법으로 활용하고 있다. 사진법(四診法)에는 망진(望診: 시각 관찰에 의해 병정(病精)의 변화를 알아내는 진단법), 문진(問診: 청각과 후각을 통해 질병의 이상 유무를 알아내는 진단법), 문진(聞診: 환자 또는 주변 사람과 대화를 통해 질병과 관련된 환경을 통해 알아보는 진단법), 절진(切診: 촉각을 통해 질병의 부위, 등을 판단하는 진단법)이 있다. 망진은 보고서 병을 아는 진단법으로 신의(神醫)라 하고, 문진(聞診)은 들어서 아는 것으로 성의(煙醫)라 하고, 문진(問診)은 물어서 아는 것으로 공의(工醫)라 하고, 절진은 맥을 짚어 아는 것으로 교의(巧醫) 라고 한다. 환자들의 몸을 진단 할 때에는 이 중에서 어느 하나의 방법만 써서는 안 된다. 보고 살피는 망진, 귀로 듣고 확인하는 문진, 묻고 답하는 문진, 만져보고 알아보는 절진의 방법을 고루 사용해야 한다. 동서양의 진단법을 서로 접목하여 통합적인 치유가 이루어진다면 질병예방과 건강유지, 증진뿐만 아니라 나아가서 국민의 행복한 삶을 영위하게 되는 지름길이 될 것으로 여겨진다. Looking at the basic concepts of western medicine and oriental medicine, Western medicine observes the human body by subdividing it into organs, tissues, blood, and lymph fluid, and analyzes and treats the local part of the lesion (the diseased part). The diagnostic test focuses on conducting and interpreting tests related to the diagnosis, progression, treatment, and prognosis of the disease using samples of blood, urine, feces, body fluids, and tissues collected from the patient. Depending on the measurement and detection target, there are general blood test, blood coagulation test, fibrinolysis test, blood biochemistry test, immunoserum test, hormone test, tumor marker, pathology test, urine test, and stool test. In addition, a variety of machines are used to directly test the function of the body. Major tests include physiological tests, x-rays, CT, MRI, PET, and ultrasound. In addition, there are various diagnostic tests. Oriental medicine sees not only lesions but also the human body as an organism in which the whole body is connected. Therefore, in oriental medicine, although local treatment, it is characterized by treatment while considering the overall balance. As a general method of diagnosing diseases in oriental medicine, 4diagnostic defined in Oriental Medicine is used as the main diagnostic method. 4diagnostic(四診法) there are Mangjin(望診), Munjin(聞診), Munjin(問診), Jeoljin(切診). Mangjin called Sin-ui(神醫) as a diagnostic method to know the disease with his eyes, Munjin understands with her ear and calls it Sung-ui(煙醫), Munjin understands through questions and calls it Gong-ui(工醫), Jeoljin understands it as a pulse and calls it Gyo-ui(巧醫). When diagnosing the patient’s body, only one of these methods should not be used. Mangjin to see and confirm, Munjin to hear and confirm with ears, Munjin to ask and confirm, and Jeoljin’s methods to touch and confirm must be integrated. Integrating the diagnosis of East-West medicine will provide a shortcut to prevent disease, maintain health, and promote the happiness of the people.