MOJ proteomics & bioinformatics最新文献

{"title":"p53 tumor suppressor protein mutants R175H, G245S, R249S and R282W: structural prediction and analysis of full length proteins","authors":"Kelly M. Thayer, Lisa Je","doi":"10.15406/MOJPB.2018.07.00217","DOIUrl":"https://doi.org/10.15406/MOJPB.2018.07.00217","url":null,"abstract":"The tumor suppressor protein p53, the “Guardian of the Genome”1, prevents the development of cancerous tumors by removing or repairing cells with damaged genetic material. Approximately 50% or more of all human cancers are attributable to mutations in this protein.2,3 The p53 protein directs either of two major pathways through signaling for the DNA repair system, or, when the extent of damage is beyond repair, initiating programmed cell death, also known as apoptosis.4–12 When p53 itself becomes mutated, genetically compromised cells may be able to proliferate unchecked by p53 regulation which can lead to tumor proliferation. Knockout mice lacking p53 develop tumors when exposed to mutagens, suggesting the key role of p53 in tumor prevention.13–15","PeriodicalId":18585,"journal":{"name":"MOJ proteomics & bioinformatics","volume":"28 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2018-02-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"76061147","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Successful identification of complex rearrangements involving multiple chromosomes in burkitt-type/mature B-cell acte lymphoblastic leukemia: further emphasis on spectral karyotyping","authors":"A. Kakimoto, Kaori Otsubo, H. Saito, N. Komatsu, A. Ohsaka","doi":"10.15406/MOJPB.2018.07.00216","DOIUrl":"https://doi.org/10.15406/MOJPB.2018.07.00216","url":null,"abstract":"Mature B-cell acute lymphoblastic leukemia (ALL) or Burkitt-type ALL is a rare entity and can be defined as the leukemic manifestation of Burkitt lymphoma (BL).1 BL is a highly aggressive B-cell malignancy and can be endemic, sporadic, or associated with immunodeficiency.2,3 Sporadic BL accounts for 1-2% of all adult lymphoma in Western Europe and the United States.2 Mature B-cell ALL is characterized by the expression of pan-/mature B-cell antigens (e.g., HLA-DR, CD19, cyCD22, and CD79α), together with surface immunoglobulin (sIg) accompanying light chain restriction, the association of an L3 morphology according to the FAB classification, and the presence of 8q24/MYC rearrangement.1-3 The MYC gene is most frequently found to be translocated into the Ig heavy chain locus (IGH), resulting in t(8;14)(q24;q32), whereas the less frequently observed variant translocations, t(2;8)(p12;q24) or t(8;22)(q24;q11), juxtapose MYC to the light chain kappa or lambda locus, respectively.1-3 However, there are often discrepancies between the morphology, immunophenotype, and genotype, leading to a heterogenous disease spectrum.","PeriodicalId":18585,"journal":{"name":"MOJ proteomics & bioinformatics","volume":"58 9","pages":""},"PeriodicalIF":0.0,"publicationDate":"2018-02-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"91462509","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The internal oligopeptide sequences missing in crystals are isordered domains","authors":"Natasha Kelkar, S. Modak","doi":"10.15406/MOJPB.2018.07.00215","DOIUrl":"https://doi.org/10.15406/MOJPB.2018.07.00215","url":null,"abstract":"Prior to their maturation as a biological structure or function, nascent polypeptides fold to form three dimensional structures composed of α helices, β sheets and disordered regions. The amino acid sequence of the processed polypeptide is stored in FASTA format (www.rcsb.org) and it is almost always longer than that in the crystal structure, retrievable in PyMol stored in pdb format, wherein the absence of residues has been noted at the C-terminal, N-terminal and at intra-polypeptide locations of crystals. Indeed, a large number of protein crystals in the data base exhibit internal missing string.1 Crystallographers generally consider that the missing residues are due to low electron density undetectable in low resolution crystallography. Since some of the gaps at the N and C termini can be attributed to posttranslational processing, the presence of missing internal oligopeptides may lead to misinterpretation of the secondary structure domains in the immediate vicinity of the gaps as well as in the flanking segments. While studying the phylogeny of proteins2 we considered the possibility that the extent of evolutionary conservation of residues defining individual secondary structure domains may be one of the determinants. As we came across the cases of internal missing intra-molecular residues here we analyze their structure and significance.","PeriodicalId":18585,"journal":{"name":"MOJ proteomics & bioinformatics","volume":"1 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2018-02-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"83283019","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Using genetic algorithm combining adaptive neuro-fuzzy inference system and fuzzy differential equation to optimizing gene","authors":"Vien Gia An, T. Anh","doi":"10.15406/MOJPB.2018.07.00214","DOIUrl":"https://doi.org/10.15406/MOJPB.2018.07.00214","url":null,"abstract":"Once a recombinant DNA is inserted into bacteria, these bacteria will make protein based on this recombinant DNA. This protein is known as “Recombinant protein”. The demand of recombinant proteins has increased as more applications in several fields become a commercial reality [1]. For instance, today, more than 75 recombinant proteins are utilized as pharmaceuticals, and more than 360 new medicines based on recombinant proteins are under development (www.phrma.org).","PeriodicalId":18585,"journal":{"name":"MOJ proteomics & bioinformatics","volume":"17 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2018-02-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"91048008","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Molecular diagnostic procedures using RT-PCR to alleviate taxonomic impediments of parasite species segregation","authors":"S. Malviya, Neeshma Jaiswal, eep K Malhotra","doi":"10.15406/MOJPB.2018.07.00213","DOIUrl":"https://doi.org/10.15406/MOJPB.2018.07.00213","url":null,"abstract":"The development of reliable tools for surveillance, diagnosis and detection of such diseases at a quicker pace has indeed been challenging in context of the emerging infectious diseases, particularly in the tropical regions of the world. The primary requirement of an effective tool of such diagnosis is the skill of a tool to detect absence of neglected tropical diseases. Meltpoint DNAbased diagnostics are being developed for a number of diseases and although qRT-PCR is the most common detection method at present, there is extensive interest in improving and diversifying detection technologies, which may provide more field-friendly tools. The technicalities of biotechnological tools, appropriateness of technological application, and rapid adaptability, as according to the alterations and adjustments suited to the progress of the control programs through different phases, from the peak prevalence of infections to the definitive diagnostics to the infections that have disappeared. The preference for an easier to use tool that had a cost-effective efficiency was propagated [1,2] even if it bore a moderate sensitivity. This was particularly because rapidity of mapping to mark high priority regions, where infection prevalence was high and frequency of screening at a brisk pace was the requirement. The sensitivities and specificities of comparable diagnostic tests were considerably improved after introduction of PCR oriented estimations and analysis before which the methods incorporating meta-analyses of diagnostic test proficiencies were invariably relied upon, examples of which are commonly available in cases for the assessment of Chagas disease, leishmaniasis and malaria [3-5], as well as Soil Transmitted Health (STH) diagnostic technology [6-9]. Some of the most common techniques for detection and diagnosis of Ascaris lumbricoides, Trichuris trichiura and Ancylostoma duodenale involving KatoKatz [10], direct microscopy[11], formol-ether concentration (FEC)[12], McMaster[13], FLOTAC[14] and Mini-FLOTAC [15] methodology. In recent years, the sensitivity of different diagnostic tests [16,17] was assessed by the application of Bayesian latent class model [18].","PeriodicalId":18585,"journal":{"name":"MOJ proteomics & bioinformatics","volume":"17 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2018-02-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"88908365","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Study of bacterial contamination of raw meat in Hyderabad","authors":"V. Nagarajan, A. Wahab, Smita Shivraj, L. Alex","doi":"10.15406/MOJPB.2018.07.00212","DOIUrl":"https://doi.org/10.15406/MOJPB.2018.07.00212","url":null,"abstract":"Food-borne pathogens are a major source of illness and death, thus leading to a huge expenditure of money on healthcare. Generally children are affected the most by food poisoning due to their weak immune systems. Key contributing factors include changes in eating habits, mass catering, availability of street foods at neighborhood corners, social or religious fairs, complex and lengthy food supply procedures with increased international movement and poor hygiene practices. Contaminated raw meat causes 90% of food-borne illnesses [1,2]. Proteins are the building blocks of our body. Animal tissue, skeletal muscle and associated fats are consumed as food which is otherwise called meat. It has large amount of proteins which are beneficial for our body [3]. Demand for meat and its products has increased over the years due to the rise in demand of protein rich food, and aping of the western culture and is preferred over plant proteins.","PeriodicalId":18585,"journal":{"name":"MOJ proteomics & bioinformatics","volume":"14 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2018-02-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"85111520","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Back-of-the-envelope guide (a tutorial) to 10 intracellular landscapes","authors":"M. Ling","doi":"10.15406/mojpb.2018.07.00209","DOIUrl":"https://doi.org/10.15406/mojpb.2018.07.00209","url":null,"abstract":"Submit Manuscript | http://medcraveonline.com biological entity, such as a chromosome (Figure 1). In a linear biological entity, such as a chromosome; the biological entity is represented on the horizontal axis and the score, such as GC content, is represented on the vertical axis. This result in a line graph representing the GC content across the entire chromosome, which can then be used to identify GC content fluctuations across a chromosome [2].","PeriodicalId":18585,"journal":{"name":"MOJ proteomics & bioinformatics","volume":"44 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2018-02-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"91221412","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Elevated human chorionic gonadotropin HCG serum level in germ cell testicular tumor","authors":"Alaa A Elnour","doi":"10.15406/MOJPB.2018.07.00211","DOIUrl":"https://doi.org/10.15406/MOJPB.2018.07.00211","url":null,"abstract":"HCG is a glycoprotein hormone composed of two dissimilar subunits, α and β, joined noncovalently. It is produced by trophoblast tissue in pregnancy and trophoblast disease and in small amounts by certain poorly differentiated cancers. The α-subunit of HCG is similar to that of the pituitary glycoprotein hormones. It is produced principally by the trophoblastic cells of the placenta but may also be produced by nontrophoblastic tissues including normal pituitary and neoplastic cells [3]. It is normal for non-pregnant women and men to make very small amounts of HCG, with blood levels less than 5mIU/mL. If HCG is high in non-pregnant women or men, it may indicate cancer [4]. Where used in malignant causes as tumor marker which is secreted by some cancers including choriocarcinoma, endometrium, and ovarian carcinoma. HCG is elevated in most type of testicular cancer seminomas and non-seminoma germ cell testicular tumors.","PeriodicalId":18585,"journal":{"name":"MOJ proteomics & bioinformatics","volume":"113 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2018-02-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"88073625","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Integrating system biology tools to decipher the mechanisms of action of herbal medicine","authors":"B. Leclerc, Priscilla Wu","doi":"10.15406/MOJPB.2018.07.00210","DOIUrl":"https://doi.org/10.15406/MOJPB.2018.07.00210","url":null,"abstract":"Since herbal medicine had been employed long ago in the treatment of various human health conditions especially in Asia countries, the Western world has recently recognized its medical benefits. Still, the therapeutic index of herbal medicine remains unknown, and their corresponding human clinical studies are largely undetermined. Many health professionals make a reservation using them for patient’s treatment without previous rigorous efficacy and safety studies which prevent herbal products approval under healthcare practices. The Food and Drug Administration had approved two botanical drugs, to named Veregen in 2006 and Fulyzaq in 2012 while other formulas are in clinical trial phases 2 & 3. The main hurdle many scientists around the world face is “demystifying” by demonstrating the mechanistic concept of herbal formulas to restore the biological processes from abnormal to health status in a variety of disorders/ diseases. Thereof, this article aims at presenting the capabilities of current biology tools and their integration into a bioinformatics platform to dissect the system mechanisms by which human cells used after being exposed to herbal formula treatment.","PeriodicalId":18585,"journal":{"name":"MOJ proteomics & bioinformatics","volume":"7 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2018-02-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"78593078","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Effects of milk supplementation for one week on the urine proteome in rats","authors":"Manxia An, Jianqiang Wu, Yanying Ni, Youhe Gao","doi":"10.15406/MOJPB.2018.07.00208","DOIUrl":"https://doi.org/10.15406/MOJPB.2018.07.00208","url":null,"abstract":"Submit Manuscript | http://medcraveonline.com physiological or pathophysiological process [1]. Because urine is not subject to the control of homeostatic mechanisms, its composition undergoes many changes; thus, urine may represent a good source of biomarkers. Urinary analysis has been used in a variety of disease biomarker studies [2-5]. Studies have shown that changes caused by anticoagulants and short diet interventions can be more easily detected in urine than blood [6,7]. However, urine is sensitive to a number of factors; many physiological parameters, including age, gender, lifestyle, and hormones, can cause changes to urine [8-12]. Changes caused by these factors may interfere with disease-related changes in disease biomarker studies. Whether identified biomarkers directly relate to a disease itself or to confounding factors may be unclear. The effects of physiological factors are more significant in the early stages of disease. Changes in urine caused by early-stage disease are relatively minor, and these changes are more likely to be interfered. Therefore, assessing and sorting out the effects of confounding factors on urine is essential to the discovery of disease markers that are more specific and reliable.","PeriodicalId":18585,"journal":{"name":"MOJ proteomics & bioinformatics","volume":"86 1","pages":""},"PeriodicalIF":0.0,"publicationDate":"2018-01-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"84189372","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}