299 results match your criteria Biological procedures online[Journal]


Development of Effective Therapeutics Targeting HER3 for Cancer Treatment.

Biol Proced Online 2019 19;21. Epub 2019 Mar 19.

2Department of Genetics, Stanley S. Scott Cancer Center, School of Medicine, Louisiana State University Health Sciences Center, New Orleans, LA USA.

HER3 is the third member of the human epidermal growth factor receptor (HER/EGFR) family, and unlike its other family members, is unique due to its minimal intrinsic kinase activity. As a result, HER3 has to interact with another receptor tyrosine kinase (RTK), such as EGFR or HER2, in order to activate the PI-3 K/Akt, MEK/MAPK, Jak/Stat pathways, as well as Src kinase. Over-expression of HER3 in various human cancers promotes tumor progression by increasing metastatic potential and acting as a major cause of treatment failure. Read More

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http://dx.doi.org/10.1186/s12575-019-0093-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6425631PMC
March 2019
1 Read

Effective Visualization and Easy Tracking of Extracellular Vesicles in Glioma Cells.

Biol Proced Online 2019 15;21. Epub 2019 Mar 15.

National Centre for Cell Science (NCCS), Savitribai Phule Pune University Campus, Pune, India.

Extracellular vesicles (EVs) are nano-sized, membrane-bound structures secreted by cells and play critical roles in mediating intercellular signaling. EVs based on their size as well as mechanisms of biosynthesis are categorized as either microvesicles (200-1000 nm) or exosomes (30-200 nm). The EVs carry several biomolecules like proteins, DNAs, RNAs, and lipids into other cells and modulate several cellular functions. Read More

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http://dx.doi.org/10.1186/s12575-019-0092-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6419365PMC

A simple and reliable protocol for long-term culture of murine bone marrow stromal (mesenchymal) stem cells that retained their in vitro and in vivo stemness in long-term culture.

Biol Proced Online 2019 1;21. Epub 2019 Feb 1.

2Endocrine Research (KMEB), Department of Endocrinology, Odense University Hospital and University of Southern Denmark, Odense, Denmark.

Background: Bone marrow derived stromal stem cells (BMSCs) are a clonogenic cell population that is characterized by self-renewal capacity and differentiation potential into osteoblasts, and other mesenchymal cell types. Mouse BMSCs (mBMSCs) are difficult to be cultured and propagated in vitro due to their replicative senescent phenotype, heterogeneity and high contamination with plastic adherent hematopoietic progenitors (HPCs). In this study, we described long-term culture of homogenous population of mBMSCs using simple and highly reproducible approach based on frequent subculturing (FS) at fixed split ratio in the presence of basic fibroblast growth factor (bFGF). Read More

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http://dx.doi.org/10.1186/s12575-019-0091-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6357407PMC
February 2019
4 Reads
1.792 Impact Factor

Regeneration of TiO Nanotube Arrays after Long-Term Cell and Tissue Culture for Multiple Use - an Environmental Scanning Electron Microscopy (ESEM) Survey of Adult Pig Retina and beyond.

Biol Proced Online 2019 29;21. Epub 2019 Jan 29.

1Leibniz-Institut für Oberflächenmodifizierung e.V. (IOM), Permoserstr. 15, 04318 Leipzig, Germany.

Long-term organotypic culture of adult tissues not only open up possibilities for studying complex structures of explants in vitro, but also can be employed e.g. to investigate pathological changes, their fingerprints on tissue mechanics, as well as the effectiveness of drugs. Read More

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http://dx.doi.org/10.1186/s12575-019-0090-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6350358PMC
January 2019

Circular Estimate Method (CEM) - a Simple Method to Estimate Culture Densities in Liquid Medium.

Biol Proced Online 2019 15;21. Epub 2019 Jan 15.

1Instituto de Ciências Biológicas (ICB), Universidade Federal do Rio Grande - FURG, Av. Itália km 8, Rio Grande, RS 96203-900 Brazil.

Background: Nematodes are used in many different fields of science, including environmental and biomedical research. Counting and/or estimating nematode numbers is required during research. Although being one of the most common procedures, this apparently simple task is a time-consuming process, prone to errors and concerns regarding procedure, reliability, and accuracy. Read More

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http://dx.doi.org/10.1186/s12575-018-0089-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6334471PMC
January 2019

Performance evaluation for MOTIFSIM.

Biol Proced Online 2018 18;20:23. Epub 2018 Dec 18.

Department of Computer Science and Engineering, University of Connecticut, Storrs, CT 06269 USA.

Background: Previous studies show various results obtained from different motif finders for an identical dataset. This is largely due to the fact that these tools use different strategies and possess unique features for discovering the motifs. Hence, using multiple tools and methods has been suggested because the motifs commonly reported by them are more likely to be biologically significant. Read More

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http://dx.doi.org/10.1186/s12575-018-0088-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6299673PMC
December 2018

Anti-inflammatory Activity of Tocotrienols in Age-related Pathologies: A SASPected Involvement of Cellular Senescence.

Biol Proced Online 2018 20;20:22. Epub 2018 Nov 20.

Advanced Technology Center for Aging Research, Scientific Technological Area, IRCCS INRCA, via Birarelli 8, 60121 Ancona, Italy.

Tocotrienols (T3) have been shown to represent a very important part of the vitamin E family since they have opened new opportunities to prevent or treat a multitude of age-related chronic diseases. The beneficial effects of T3 include the amelioration of lipid profile, the promotion of Nrf2 mediated cytoprotective activity and the suppression of inflammation. All these effects may be the consequence of the ability of T3 to target multiple pathways. Read More

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http://dx.doi.org/10.1186/s12575-018-0087-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6247629PMC
November 2018
1.792 Impact Factor

CRISPR/Cas9 Knockout Strategies to Ablate lncRNA Gene in Cancer Cells.

Biol Proced Online 2018 1;20:21. Epub 2018 Nov 1.

1Department of Basic Sciences, Faculty of Veterinary Medicine, Ferdowsi University of Mashhad, Azadi Square, Mashhad, Iran.

Background: With the increasing discovery of long noncoding RNAs (lncRNAs), the application of functional techniques that could have very specific, efficient, and robust effects and readouts is necessary. Here, we have applied and analyzed three gene knockout (KO) strategies to ablate the gene in different colorectal adenocarcinoma cell lines. We refer to these strategies as "CRISPR excision", "CRISPR HDR", and "CRISPR du-HITI". Read More

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https://biologicalproceduresonline.biomedcentral.com/article
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http://dx.doi.org/10.1186/s12575-018-0086-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6211572PMC
November 2018
16 Reads

Three-Dimensional Quantification of Spheroid Degradation-Dependent Invasion and Invadopodia Formation.

Biol Proced Online 2018 15;20:20. Epub 2018 Oct 15.

1Cancer Invasion and Metastasis Laboratory, Faculty of Dentistry, University of Toronto, Toronto, Canada.

Invadopodia are actin-rich, proteolytic structures that enable cancer cell to invade into the surrounding tissues. Several in vitro invasion assays have been used in the literature ranging from directional quantitative assays to complex three-dimensional (3D) analyses. One of the main limitations of these assays is the lack of quantifiable degradation-dependent invasion in a three-dimensional (3D) environment that mimics the tumor microenvironment. Read More

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http://dx.doi.org/10.1186/s12575-018-0085-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6190556PMC
October 2018

Modified SureSelect Target Enrichment Protocol for Illumina Multiplexed Sequencing of FFPE Samples.

Biol Proced Online 2018 12;20:19. Epub 2018 Oct 12.

1CIBER-ONC, Instituto de Salud Carlos III, Madrid, Spain.

Background: Personalised medicine is nowadays a major objective in oncology. Molecular characterization of tumours through NGS offers the possibility to find possible therapeutic targets in a time- and cost-effective way. However, the low quality and complexity of FFPE DNA samples bring a series of disadvantages for massive parallel sequencing techniques compared to high-quality DNA samples (from blood cells, cell cultures, etc. Read More

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http://dx.doi.org/10.1186/s12575-018-0084-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6182866PMC
October 2018
4 Reads

A New ELISA to Overcome the Pitfalls in Quantification of Recombinant Human Monoclonal Anti-HBs, GC1102, by Commercial Immunoassays.

Biol Proced Online 2018 27;20:18. Epub 2018 Sep 27.

4Division of Biomedical Convergence, College of Biomedical Science, Kangwon National University, Chuncheon, 24641 Korea.

Several methods for the quantification of human anti-HBs, an antibody to hepatitis B surface antigen (HBsAg), have been developed based on enzyme reaction, chemiluminescence, fluorescence, and radioactivity for application to human serum or plasma. Commercial anti-HBs immunoassay kits use a sandwich method in which a bridge is formed by the anti-HBs between a HBsAg immobilized solid matrix and the labeled HBsAg. However, this direct sandwich enzyme-linked immunosorbent assay (ELISA) is insufficient to accurately evaluate the activity of the human monoclonal anti-HBs, GC1102. Read More

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https://www.researchgate.net/publication/327918351_A_New_ELI
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https://biologicalproceduresonline.biomedcentral.com/article
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http://dx.doi.org/10.1186/s12575-018-0083-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6158867PMC
September 2018
29 Reads

microRNA Regulation in Estrogen Receptor-Positive Breast Cancer and Endocrine Therapy.

Biol Proced Online 2018 11;20:17. Epub 2018 Sep 11.

Julius L. Chambers Biomedical/Biotechnology Research Institute, Department of Biological and Biomedical Sciences, North Carolina Central University, North Carolina Research Campus, 500 Laureate Way, NRI 4301, Kannapolis, North Carolina 28081 USA.

As de novo and acquired resistance to standard first line endocrine therapies is a growing clinical challenge for estrogen receptor-positive (ER) breast cancer patients, understanding the mechanisms of resistance is critical to develop novel therapeutic strategies to prevent therapeutic resistance and improve patient outcomes. The widespread post-transcriptional regulatory role that microRNAs (miRNAs) can have on various oncogenic pathways has been well-documented. In particular, several miRNAs are reported to suppress ERα expression via direct binding with the 3' UTR of mRNA, which can confer resistance to estrogen/ERα-targeted therapies. Read More

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http://dx.doi.org/10.1186/s12575-018-0082-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6134714PMC
September 2018

Targeting of HER3 with Functional Cooperative miRNAs Enhances Therapeutic Activity in HER2-Overexpressing Breast Cancer Cells.

Biol Proced Online 2018 8;20:16. Epub 2018 Aug 8.

1Department of Pathology, School of Medicine, University of Colorado Anschutz Medical Campus, MS-8104, 12801 E. 17th Ave, Aurora, CO 80045 USA.

Background: The HER3 receptor functions as a major cause of drug resistance in cancer treatment. It is believed that therapeutic targeting of HER3 is required to improve patient outcomes. It is not clear whether a novel strategy with two functional cooperative miRNAs would effectively inhibit expression and potentiate the anti-proliferative/anti-survival effects of a HER2-targeted therapy (trastuzumab) and chemotherapy (paclitaxel) on HER2-overexpressing breast cancer cells. Read More

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http://dx.doi.org/10.1186/s12575-018-0081-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6081814PMC
August 2018
1 Read

Real-Time Vital Mineralization Detection and Quantification during In Vitro Osteoblast Differentiation.

Biol Proced Online 2018 1;20:14. Epub 2018 Aug 1.

2Department of Clinical Science, University of Bergen, Po Box 7804, 5020, Bergen, Norway.

Background: In vitro studies of osteoblasts traditionally use Alizarin Red as a golden standard for the detection and quantification of mineralization, which is a marker of osteoblast differentiation. However, this method presents a number of drawbacks, including the need to fix cells, which prevents additional measurements. Years ago, Calcein Green was proposed as an alternative to Alizarin Red, with the advantage to be directly detectable in live cells. Read More

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http://dx.doi.org/10.1186/s12575-018-0079-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6069543PMC
August 2018
2 Reads

Optimization of Immunofluorescent Detection of Bone Marrow Disseminated Tumor Cells.

Biol Proced Online 2018 1;20:13. Epub 2018 Jul 1.

1The James Buchanan Brady Urological Institute, Johns Hopkins University School of Medicine, 600 North Wolfe St., Marburg Building Room 121, Baltimore, MD 21287 USA.

Background: Cancer metastasis is the primary cause of cancer-related deaths and remains incurable. Current clinical methods for predicting metastatic recurrence are not sensitive enough to detect individual cancer cells in the body; therefore, current efforts are directed toward liquid biopsy-based assays to capture circulating and disseminated tumor cells (CTCs and DTCs) in the blood and bone marrow, respectively. The most promising strategy is fluorescence-based immunostaining using cancer cell-specific markers. Read More

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http://dx.doi.org/10.1186/s12575-018-0078-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6026516PMC
July 2018
5 Reads

Icariin: a Potential Compound for the Recovery of Tibial Dyschondroplasia Affected Chicken Via Up-Regulating BMP-2 Expression.

Biol Proced Online 2018 1;20:15. Epub 2018 Jul 1.

1College of Veterinary Medicine, Huazhong Agricultural University, Wuhan, 430070 People's Republic of China.

Background: Tibial dyschondroplasia (TD) is a skeletal disease of fast growing chicken and other avian species. It is characterized by an avascular and non-mineralized growth plate, which leads to a deformed tibial bone and lameness. Unfortunately, this disease is not only responsible for causing huge economic losses but also raises animal welfare concerns. Read More

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http://dx.doi.org/10.1186/s12575-018-0080-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6026509PMC
July 2018
2 Reads
1.792 Impact Factor

Method for improving the quality of genomic DNA obtained from minute quantities of tissue and blood samples using Chelex 100 resin.

Biol Proced Online 2018 1;20:12. Epub 2018 Jun 1.

Division of Systems Neuroscience, National Brain Research Centre, Deemed University, Gurugram, Haryana India.

Background: Although genomic DNA isolation using the Chelex 100 resin is rapid and inexpensive, the DNA obtained by this method has a low concentration in solution and contains suspended impurities. The presence of debris in the DNA solution may result in degradation of DNA on long term storage and inhibition of the polymerase chain reaction. In order to remove impurities and concentrate the DNA in solution, we have introduced modifications in the existing DNA isolation protocol using Chelex-100. Read More

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http://dx.doi.org/10.1186/s12575-018-0077-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5984428PMC
June 2018
12 Reads

Isolation and Semi Quantitative PCR of Na/H Antiporter (SOS1 and NHX) Genes under Salinity Stress in .

Biol Proced Online 2018 1;20:11. Epub 2018 Jun 1.

2Agriculture and Biotechnology Research Institute, University of Zabol, Zabol, 98613-35856 Iran.

Background: is a dicotyledonous annual herb and belongs to the Amaranthaceae family. Genetic diversity and resistance to drought stress of this plant has made it widely scattered in different regions which contains highly genetic diversity and great potential as fodder and can grow on salty, drought affected areas. Since the soil salinity has become widely spread, environmental concern has sparked so many debates. Read More

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http://dx.doi.org/10.1186/s12575-018-0076-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5984343PMC
June 2018
2 Reads

Blockade of ITGA2 Induces Apoptosis and Inhibits Cell Migration in Gastric Cancer.

Biol Proced Online 2018 1;20:10. Epub 2018 May 1.

1Departmet of Biological Science and Technology, National Chiao Tung University, 75 Bo-Ai Street, Hsinchu, 300 Taiwan, Republic of China.

Background: Gastric cancer is currently the fourth leading cause of cancer-related death worldwide. Gastric cancer is often diagnosed at advanced stages and the outcome of the treatment is often poor. Therefore, identifying new therapeutic targets for this cancer is urgently needed. Read More

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http://dx.doi.org/10.1186/s12575-018-0073-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5928594PMC
May 2018
5 Reads
1 Citation
1.792 Impact Factor

Use of RNA Immunoprecipitation Method for Determining RNAHfq Protein Associations In Vivo.

Biol Proced Online 2018 1;20. Epub 2018 May 1.

2Department of Plant Genetics and Breeding, China Agricultural University, Beijing, 100193 People's Republic of China.

Background: Soil bacterium () forms an endosymbiotic partnership with () roots which results in root nodules. The bacteria live within root nodules where they function to fix atmospheric N and supply the host plant with reduced nitrogen. The bacterial RNA-binding protein Hfq (Hfq) is an important regulator for the effectiveness of the nitrogen fixation. Read More

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http://dx.doi.org/10.1186/s12575-018-0075-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5928592PMC
May 2018
1 Read

Treatment of Advanced Non-small-Cell Lung Cancer with Qi-Nourishing Essence-Replenishing Chinese Herbal Medicine Combined with Chemotherapy.

Biol Proced Online 2018 1;20. Epub 2018 Apr 1.

1Department of Oncology, Longhua Hospital, Shanghai University of Traditional Chinese Medicine, Shanghai, ,200032 China.

Background: To evaluate the effect of qi-nourishing essence-replenishing Chinese herbal medicine combined with chemotherapy in survival of advanced non-small-cell lung cancer(NSCLC) patients with essence and qi deficiency.

Methods: A prospective multi-centered randomized controlled study was conducted, and 266 advanced NSCLC patients were enrolled. 126 patients in control group received Vinorelbine plus cisplatin(NP) chemotherapy combined with symptom-oriented Chinese herbs medication(without qi-nourishing essence-replenishing herbs);140 patients in experimental group received NP chemotherapy combined with qi-nourishing essence-replenishing Chinese herbal medication(Kangliu Zengxiao Decoction and modified Feiyanning Decoction, during and after chemotherapy respectively). Read More

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http://dx.doi.org/10.1186/s12575-018-0074-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5878937PMC
April 2018
54 Reads

DNA Area and NETosis Analysis (DANA): a High-Throughput Method to Quantify Neutrophil Extracellular Traps in Fluorescent Microscope Images.

Biol Proced Online 2018 1;20. Epub 2018 Apr 1.

1Department of Medicine, University of Wisconsin, Madison, WI USA.

Background: Neutrophil extracellular traps (NETs), extracellular structures composed of decondensed chromatin and antimicrobial molecules, are released in a process called NETosis. NETs, which are part of normal host defense, have also been implicated in multiple human diseases. Unfortunately, methods for quantifying NETs have limitations which constrain the study of NETs in disease. Read More

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http://dx.doi.org/10.1186/s12575-018-0072-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5878938PMC
April 2018
4 Reads

High-Sensitivity and High-Resolution In Situ Hybridization of Coding and Long Non-coding RNAs in Vertebrate Ovaries and Testes.

Biol Proced Online 2018 1;20. Epub 2018 Mar 1.

1Biosystems Science Course, Graduate School of Life Science, Hokkaido University, Sapporo, 060-0810 Japan.

Background: Subcellular localization of coding and non-coding RNAs has emerged as major regulatory mechanisms of gene expression in various cell types and many organisms. However, techniques that enable detection of the subcellular distribution of these RNAs with high sensitivity and high resolution remain limited, particularly in vertebrate adult tissues and organs. In this study, we examined the expression and localization of mRNAs encoding Pou5f1/Oct4, Mos, Cyclin B1 and Deleted in Azoospermia-like (Dazl) in zebrafish and mouse ovaries by combining tyramide signal amplification (TSA)-based in situ hybridization with paraffin sections which can preserve cell morphology of tissues and organs at subcellular levels. Read More

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http://dx.doi.org/10.1186/s12575-018-0071-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5831722PMC
March 2018
1 Read

Silhouette Scores for Arbitrary Defined Groups in Gene Expression Data and Insights into Differential Expression Results.

Biol Proced Online 2018 1;20. Epub 2018 Mar 1.

Graduate School of Agricultural and Life Sciences, The University of Tokyo, 1-1-1 Yayoi, Bunkyo-ku, Tokyo, 113-8657 Japan.

Background: Hierarchical Sample clustering (HSC) is widely performed to examine associations within expression data obtained from microarrays and RNA sequencing (RNA-seq). Researchers have investigated the HSC results with several possible criteria for grouping (e.g. Read More

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http://dx.doi.org/10.1186/s12575-018-0067-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5831220PMC
March 2018
9 Reads

Antitumor Efficacy of Human Monocyte-Derived Dendritic Cells: Comparing Effects of two Monocyte Isolation Methods.

Biol Proced Online 2018 2;20. Epub 2018 Feb 2.

1CEDOC, NOVA Medical School/Faculdade de Ciências Médicas, Universidade NOVA de Lisboa, Lisbon, Portugal.

Background: Dendritic cells (DCs), which can be used as anti-cancer vaccines, are generally obtained in vitro from isolated CD14 monocytes (MoDCs). This generates high cell numbers and allows instructing DCs to guarantee effective antitumor responses. However, the impact of the monocyte isolation step in the antitumor effectiveness of the generated MoDCs is still unknown. Read More

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http://dx.doi.org/10.1186/s12575-018-0069-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5796591PMC
February 2018
2 Reads

Visualisation of Multiple Tight Junctional Complexes in Human Airway Epithelial Cells.

Biol Proced Online 2018 1;20. Epub 2018 Feb 1.

2School of Paediatrics and Child Health, The University of Western Australia, Nedlands, Western Australia 6009 Australia.

Background: Apically located tight junctions in airway epithelium perform a fundamental role in controlling macromolecule migration through paracellular spaces. Alterations in their expression may lead to disruptions in barrier integrity, which subsequently facilitates entry of potential bacterial and other pathogens into the host. Furthermore, there is emerging evidence that the barrier integrity of the airway in certain airway inflammatory diseases may be altered. Read More

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http://dx.doi.org/10.1186/s12575-018-0070-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5793437PMC
February 2018
3 Reads
1 Citation
1.792 Impact Factor

Gibson Deletion: a novel application of isothermal in vitro recombination.

Biol Proced Online 2018 19;20. Epub 2018 Jan 19.

Department of Biochemistry and Molecular Pharmacology, NYU Langone Health, Institute of Systems Genetics (ISG), New York, NY 10016 USA.

Background: Recombinant DNA technology is today a fundamental tool for virtually all biological research fields. Among the many techniques available for the construction of a "custom DNA" molecule, the isothermal in vitro assembly, or Gibson assembly, allows for an efficient, one-step, scarless recombination-based assembly.

Results: Here, we apply and characterize the use of Gibson assembly for the deletion of DNA sequences around a DNA cut. Read More

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http://dx.doi.org/10.1186/s12575-018-0068-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5774033PMC
January 2018
2 Reads

Cancer chemoprevention and therapy using chinese herbal medicine.

Biol Proced Online 2018 8;20. Epub 2018 Jan 8.

Department of Oncology, Yueyang Hospital of Integrated Traditional Chinese and Western Medicine, Shanghai University of Traditional Chinese Medicine, No.110, Ganhe Road, Hongkou District, Shanghai, 200437 China.

Traditional Chinese medicine (TCM) plays an indispensable role in cancer prevention and treatment. Chinese herbal medicine (CHM) is a key component of TCM and has been practiced for thousands of years. A number of naturally occurring products from Chinese herbs extracts exhibit strong inhibitory properties against carcinogenesis, including CHM single-herb extracts, CHM-derived active components, and CHM formulas (the polyherbal combinations), which regulate JAK/STAT, MAPK, and NF-ҡB pathways. Read More

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http://dx.doi.org/10.1186/s12575-017-0066-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5757296PMC
January 2018
44 Reads

Maintaining RNA Integrity for Transcriptomic Profiling of Ex Vivo Cultured Limbal Epithelial Stem Cells after Fluorescence-Activated Cell Sorting (FACS).

Biol Proced Online 2017 12;19:15. Epub 2017 Dec 12.

Laboratory for Stem Cell Research, Aalborg University, Aalborg, Denmark.

Background: Transcriptomic profiling of ex vivo cultured human limbal epithelial stem cells (hLESCs) will foster better understanding of corneal physiology and novel treatment paradigms to limbal stem cell deficiency (LSCD). However, currently such profiling studies are hampered due to difficulties with producing sufficient amounts of intact mRNA for deep RNA sequencing (RNA-seq) from subpopulations sorted on the basis of co-expression of membrane and intracellular antigens by fluorescence-activated cell sorting (FACS).

Methods: To address this problem, we systematically analyzed the critical steps, and found that ethanol fixation together with optimized downstream procedures provided a pipeline that yielded high quality total RNA in amounts to readily support the RNA-seq procedure, while still preserving good discrimination between the individual hLESC immunophenotypes. Read More

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http://dx.doi.org/10.1186/s12575-017-0065-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5727887PMC
December 2017
7 Reads
1.792 Impact Factor

Production of Monoclonal Antibodies against Human Trefoil Factor 3 and Development of a Modified-Sandwich ELISA for Detection of Trefoil Factor 3 Homodimer in Saliva.

Biol Proced Online 2017 8;19:14. Epub 2017 Nov 8.

Division of Clinical Immunology, Department of Medical Technology, Faculty of Associated Medical Sciences, Chiang Mai University, Chiang Mai, 50200 Thailand.

Background: Human trefoil factor (TFF) peptides consist of three members: TFF1, TFF2 and TFF3. TFF3 is the most abundant TFF peptide in saliva. TFF3 homodimer was suggested to be involved in apoptosis inhibition and malignancy. Read More

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http://dx.doi.org/10.1186/s12575-017-0064-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5678759PMC
November 2017
37 Reads

SV40 Large T Antigen Disrupts Embryogenesis of Canine and Porcine Somatic Cell Nuclear Transfer Embryo.

Biol Proced Online 2017 18;19:13. Epub 2017 Oct 18.

Department of Biotechnology, College of Life Sciences and Biotechnology, Korea University, 145 Anam-ro, Seongbuk-gu, Seoul, 02841 Republic of Korea.

Background: Somatic cell nuclear transfer (SCNT) is a useful biotechnological tool for transgenic animal production using genetically modified somatic cells (GMSCs). However, there are several limitations preventing successful transgenic animal generation by SCNT, such as obtaining proper somatic donor cells with a sufficiently long life span and proliferative capacity for generating GMSCs. Here, we established simian virus 40 large T antigen (SV40LT)-mediated lifespan-extended canine fibroblast cells (SV40LT-K9 cells) and evaluated their potential as nuclei donors for SCNT, based on cellular integrity and SCNT embryo development. Read More

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http://dx.doi.org/10.1186/s12575-017-0061-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5648454PMC
October 2017
2 Reads

Enhanced Mutant Screening in One-step PCR-based Multiple Site-directed Plasmid Mutagenesis by Introduction of Silent Restriction Sites for Structural and Functional Study of Proteins.

Biol Proced Online 2017 26;19:12. Epub 2017 Sep 26.

Institute of Molecular and Cellular Biology, National Tsing Hua University, Hsinchu, 30013 Taiwan, Republic of China.

Site-directed mutagenesis (SDM) has been widely used for studying the structure and function of proteins. A one-step polymerase chain reaction (PCR)-based multiple site-directed plasmid mutagenesis method with extended non-overlapping sequence at the 3' end of the primer increases the PCR amplification efficiency and the capacity of multi-site mutagenesis. Here, we introduced silent restriction sites in the primers used in this PCR-based SDM method by utilizing SDM-Assist software to generate mutants of neutrophil-activating protein (HP-NAP), whose gene has low GC content. Read More

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http://dx.doi.org/10.1186/s12575-017-0062-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5615473PMC
September 2017
2 Reads

Efficient and inexpensive transient expression of multispecific multivalent antibodies in Expi293 cells.

Biol Proced Online 2017 15;19:11. Epub 2017 Sep 15.

Department of Public Health and Caring Sciences, Uppsala University, Rudbeck laboratory, Dag Hammarskjöldsväg 20, 751 85 Uppsala, Sweden.

Background: Immunotherapy is a very fast expanding field within drug discovery and, hence, rapid and inexpensive expression of antibodies would be extremely valuable. Antibodies are, however, difficult to express. Multifunctional antibodies with additional binding domains further complicate the expression. Read More

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http://dx.doi.org/10.1186/s12575-017-0060-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5603040PMC
September 2017
22 Reads

An Assessment of Fixed and Native Chromatin Preparation Methods to Study Histone Post-Translational Modifications at a Whole Genome Scale in Skeletal Muscle Tissue.

Biol Proced Online 2017 29;19:10. Epub 2017 Aug 29.

URA, INRA, 37380 Nouzilly, France.

Background: Genomic loci associated with histone marks are typically analyzed by immunoprecipitation of the chromatin followed by quantitative-PCR (ChIP-qPCR) or high throughput sequencing (ChIP-seq). Chromatin can be either cross-linked (X-ChIP) or used in the native state (N-ChIP). Cross-linking of DNA and proteins helps stabilizing their interactions before analysis. Read More

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http://dx.doi.org/10.1186/s12575-017-0059-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5576305PMC
August 2017
14 Reads

Cell Counting and Viability Assessment of 2D and 3D Cell Cultures: Expected Reliability of the Trypan Blue Assay.

Biol Proced Online 2017 20;19. Epub 2017 Jul 20.

Advanced Research Center on Electronic Systems "Ercole De Castro" (ARCES), University of Bologna, Via Toffano 2/2, 40125 Bologna, Italy.

Background: Whatever the target of an experiment in cell biology, cell counting and viability assessment are always computed. The Trypan Blue (TB) assay was proposed about a century ago and is still the most widely used method to perform cell viability analysis. Furthermore, the combined use of TB with a haemocytometer is also considered the standard approach to estimate cell population density. Read More

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http://dx.doi.org/10.1186/s12575-017-0056-3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5518102PMC
July 2017
3 Reads

An Initial Investigation of an Alternative Model to Study rat Primordial Germ Cell Epigenetic Reprogramming.

Biol Proced Online 2017 3;19. Epub 2017 Aug 3.

Laboratory of Developmental Biology, Department of Morphology and Genetics, Federal University of Sao Paulo (UNIFESP), Sao Paulo, Brazil.

Background: Primordial germ cells (PGC) are the precursors of the gametes. During pre-natal development, PGC undergo an epigenetic reprogramming when bulk DNA demethylation occurs and is followed by sex-specific de novo methylation. The de novo methylation and the maintenance of the methylation patterns depend on DNA methyltransferases (DNMTs). Read More

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http://dx.doi.org/10.1186/s12575-017-0058-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5541664PMC
August 2017
1 Read

3D Printer Generated Tissue iMolds for Cleared Tissue Using Single- and Multi-Photon Microscopy for Deep Tissue Evaluation.

Biol Proced Online 2017 5;19. Epub 2017 Jul 5.

Department of Neurology, Johns Hopkins University School of Medicine, Johns Hopkins Univ., 855 N Wolfe Street, Room 250.18, Baltimore, MD 21205 USA.

Background: Pathological analyses and methodology has recently undergone a dramatic revolution. With the creation of tissue clearing methods such as CLARITY and CUBIC, groups can now achieve complete transparency in tissue samples in nano-porous hydrogels. Cleared tissue is then imagined in a semi-aqueous medium that matches the refractive index of the objective being used. Read More

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http://dx.doi.org/10.1186/s12575-017-0057-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5497344PMC

Pre-Microporation Improves Outcome of Pancreatic Islet Labelling for Optical and F MR Imaging.

Biol Proced Online 2017 28;19. Epub 2017 Jun 28.

MR Unit, Radiodiagnostic and Interventional Radiology Department, Institute for Clinical and Experimental Medicine, Vídeňská 1958/9, Prague, Czech Republic.

Background: In vitro labelling of cells and small cell structures is a necessary step before in vivo monitoring of grafts. We modified and optimised a procedure for pancreatic islet labelling using bimodal positively charged poly(lactic-co-glycolic acid) nanoparticles with encapsulated perfluoro crown ethers and indocyanine green dye via microporation and compared the method with passive endocytosis.

Results: Pancreatic islets were microporated using two pulses at various voltages. Read More

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http://dx.doi.org/10.1186/s12575-017-0055-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5488379PMC
June 2017
9 Reads

Performances of Different Fragment Sizes for Reduced Representation Bisulfite Sequencing in Pigs.

Biol Proced Online 2017 7;19. Epub 2017 Jun 7.

Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding, National Engineering Research Centre for Breeding Swine Industry, College of Animal Science, South China Agricultural University, Guangzhou, Guangdong China.

Background: Reduced representation bisulfite sequencing (RRBS) has been widely used to profile genome-scale DNA methylation in mammalian genomes. However, the applications and technical performances of RRBS with different fragment sizes have not been systematically reported in pigs, which serve as one of the important biomedical models for humans. The aims of this study were to evaluate capacities of RRBS libraries with different fragment sizes to characterize the porcine genome. Read More

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http://biologicalproceduresonline.biomedcentral.com/articles
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http://dx.doi.org/10.1186/s12575-017-0054-5DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5463379PMC
June 2017
57 Reads

Comparison of transepithelial resistance measurement techniques: Chopsticks vs. Endohm.

Biol Proced Online 2017 10;19. Epub 2017 May 10.

Biology Department, Southwestern University, 1001 E University Ave, Georgetown, TX 78626 USA.

Background: TER measurements across confluent cellular monolayers provide a useful indication of TJ strength between epithelial and endothelial cells in culture. Having a reliable and accurate method of measuring cell-to-cell adhesion is critical to studies in pathophysiology and cancer metastasis. However, the use of different technical approaches to measure TER has reportedly yielded inconsistent measurements within the same cell lines. Read More

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http://dx.doi.org/10.1186/s12575-017-0053-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5424405PMC
May 2017
8 Reads

LncRNAs and immunity: watchdogs for host pathogen interactions.

Biol Proced Online 2017 27;19. Epub 2017 Apr 27.

Division of Animal Breeding and Genetics, Faculty of Veterinary Sciences and Animal Husbandry, SKUAST-K, Shuhama, Srinagar, Jammu and Kashmir India.

Immune responses combat various infectious agents by inducing inflammatory responses, antimicrobial pathways and adaptive immunity. The polygenic responses to these external stimuli are temporally and coordinately regulated. Specific lncRNAs are induced to modulate innate and adaptive immune responses which can function through various target interactions like RNA-DNA, RNA-RNA, and RNA-protein interaction and hence affect the immunogenic regulation at various stages of gene expression. Read More

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http://dx.doi.org/10.1186/s12575-017-0052-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5406993PMC
April 2017
47 Reads

Methylated DNA/RNA in Body Fluids as Biomarkers for Lung Cancer.

Biol Proced Online 2017 17;19. Epub 2017 Mar 17.

No.2 oncology department, Yueyang Hospital of Integrated Traditional Chinese and Western Medicine, Shanghai University of Traditional Chinese Medicine, No.110, Ganhe Rd, Shanghai, China.

DNA/RNA methylation plays an important role in lung cancer initiation and progression. Liquid biopsy makes use of cells, nucleotides and proteins released from tumor cells into body fluids to help with cancer diagnosis and prognosis. Methylation of circulating tumor DNA (ctDNA) has gained increasing attention as biomarkers for lung cancer. Read More

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http://biologicalproceduresonline.biomedcentral.com/articles
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http://dx.doi.org/10.1186/s12575-017-0051-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5356409PMC
March 2017
1 Read

Auxin Extraction and Purification Based on Recombinant Aux/IAA Proteins.

Biol Proced Online 2017 13;19. Epub 2017 Jan 13.

Hunan Provincial Key Laboratory of Phytohormones and Growth Development, Hunan Agricultural University, Changsha, China ; Hunan Co-Innovation Center for Utilization of Botanical Functional Ingredients, Changsha, China.

Background: Indole-3-acetic acid (IAA) extraction and purification are of great importance in auxin research, which is a hot topic in the plant growth and development field. Solid-phase extraction (SPE) is frequently used for IAA extraction and purification. However, no IAA-specific SPE columns are commercially available at the moment. Read More

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http://dx.doi.org/10.1186/s12575-016-0050-1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5237334PMC
January 2017
7 Reads

An Automated Perifusion System for Modifying Cell Culture Conditions over Time.

Biol Proced Online 2016 21;18:19. Epub 2016 Nov 21.

Diabetes Institute, Ohio University, Athens, OH USA.

Background: Cells are continuously exposed to changes in their environment. Endocrine systems, in particular, communicate by rhythms and feedback loops. In this study, we developed an automated system to produce such conditions for cultured cells in a precisely timed manner. Read More

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http://dx.doi.org/10.1186/s12575-016-0049-7DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5117600PMC
November 2016
15 Reads

Aqueous two-phase system (ATPS): an overview and advances in its applications.

Biol Proced Online 2016 28;18:18. Epub 2016 Oct 28.

National Reference Laboratory of Veterinary Drug Residues (HZAU)/MOA Key Laboratory of Food Safety Evaluation, Huazhong Agricultural University, Wuhan, Hubei 430070 China ; MAO Laboratory for Risk Assessment of Quality and Safety of Livestock and Poultry Products, Huazhong Agricultural University, Wuhan, Hubei 430070 China.

Aqueous two-phase system (ATPS) is a liquid-liquid fractionation technique and has gained an interest because of great potential for the extraction, separation, purification and enrichment of proteins, membranes, viruses, enzymes, nucleic acids and other biomolecules both in industry and academia. Although, the partition behavior involved in the method is complex and difficult to predict. Current research shows that it has also been successfully used in the detection of veterinary drug residues in food, separation of precious metals, sewage treatment and a variety of other purposes. Read More

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http://dx.doi.org/10.1186/s12575-016-0048-8DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5084470PMC
October 2016
15 Reads

Fluorescence ImmunoPrecipitation (FLIP): a Novel Assay for High-Throughput IP.

Biol Proced Online 2016 15;18:16. Epub 2016 Aug 15.

Institute of Systems Genetics (ISG), Department of Biochemistry and Molecular Pharmacology, NYU Langone Medical Center, ACLSW Room 560, 430 East 29th Street, New York, NY 10016 USA ; High Throughput Biology Center, Johns Hopkins University School of Medicine, Baltimore, MD 21205 USA.

Background: The immunoprecipitation (IP) assay is a valuable molecular biology tool applied across a breadth of fields. The standard assay couples IP to immunoblotting (IP/IB), a procedure severely limited as it is not easily scaled for high-throughput analysis.

Results: Here we describe and characterize a new methodology for fast and reliable evaluation of an immunoprecipitation reaction. Read More

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http://dx.doi.org/10.1186/s12575-016-0046-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4983793PMC
August 2016
8 Reads

Isolation, expansion and characterization of porcine urinary bladder smooth muscle cells for tissue engineering.

Biol Proced Online 2016 12;18:17. Epub 2016 Aug 12.

Department of Regenerative Medicine, Nicolaus Copernicus University in Torun, Ludwik Rydygier Medical College in Bydgoszcz, Chair of Urology, Karlowicza 24 Street, 85-092 Bydgoszcz, Poland ; Department of Urology, Nicolaus Copernicus Hospital, Torun, Poland.

Background: A key requirements for therapy utilizing the tissue engineering methodologies is use of techniques which have the capability to yield a high number of cells, from small tissue biopsy in a relatively short time. Up to date there was no optimal methods of isolation and expansion of urinary bladder smooth muscle cells (UB-SMCs). The aim of this study was to compare isolation and expansion techniques of UB-SMCs to select the most repeatable and efficient one. Read More

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http://dx.doi.org/10.1186/s12575-016-0047-9DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4982216PMC
August 2016
14 Reads
2 Citations
1.792 Impact Factor

An optimised method for the proteomic profiling of full thickness human skin.

Biol Proced Online 2016 21;18:15. Epub 2016 Jul 21.

Centre for Translational Omics, UCL Institute of Child Health, 30 Guilford Street, London, WC1N 1EH UK.

Background: The skin is the largest organ of the human body and is the first line barrier defence against trauma, microbial infiltration and radiation. Skin diseases can be a result of multi-systemic disease or an isolated condition. Due to its proteolysis resistant properties there are relatively few human skin proteomic datasets published compared with other human organs or body fluids. Read More

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http://dx.doi.org/10.1186/s12575-016-0045-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4955162PMC
July 2016
9 Reads

An Optimized Protocol for Packaging Pseudotyped Integrase Defective Lentivirus.

Biol Proced Online 2016 11;18:14. Epub 2016 Jul 11.

Department of Bioengineering, School of Engineering, Santa Clara University, 500 El Camino Real, Santa Clara, CA 95053 USA.

Background: A number of integrase defective lentiviral (IDLV) packaging systems have been developed to produce integration deficient lentiviruses for gene delivery and epichromosomal expression. However, despite their growing demand, a comparative study to systemically evaluate the performance efficiency of different mutants on virus packaging and gene expression has not been done.

Results: Site-directed mutagenesis was used to generate five integrasedeficient mutants for non-integrative lentiviral packaging (NILVP). Read More

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http://dx.doi.org/10.1186/s12575-016-0044-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4939624PMC
July 2016
2 Reads

Reliable FASP-based procedures for optimal quantitative proteomic and phosphoproteomic analysis on samples from acute myeloid leukemia patients.

Biol Proced Online 2016 21;18:13. Epub 2016 Jun 21.

Department of Biomedicine, Faculty of Medicine and Dentistry, University of Bergen, Jonas Lies vei 91, 5009 Bergen, Norway.

Background: Satisfactory sample preparation for mass spectrometry-based analysis is a critical step in the proteomics workflow. The quality and reproducibility of sample preparation can determine the coverage and confidence of proteomics results. Up to date, several methodologies have been described to produce suitable peptides for mass spectrometry analysis, followed by strategies for enrichment of post-translational modified peptides, if desired. Read More

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http://dx.doi.org/10.1186/s12575-016-0043-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4915068PMC
June 2016
26 Reads