Jul
21
microRNA Discovery & Profiling
Filed Under Product Information | Leave a Comment
Jul
20
PepCyber Database Update – V1.2
Filed Under Information | Leave a Comment
The current release of the PepCyber: P~Pep database V1.2 (May 2010) includes 11,269 records of interactions between 387 PPBD proteins and 1,471 substrate proteins, curated from 4,852 published studies. This release represents a 60% increase in the number proteins covered over the previous release.
PepCyber: P~Pep is the largest public database of human protein-protein interactions mediated by phosphoprotein binding domains (PPBDs). The database is hand curated from peer-reviewed literature and is a rich information source emphasizing the reported, experimentally validated data for specific PPBD-PPEP interactions, not a simple deposit of computational entries. PepCyber: P~Pep is freely accessible at http://www.pepcyber.org/PPEP/.
- Gong W, Zhou D, Ren Y, Wang Y, Zuo Z, Shen Y, Xiao F, Zhu Q, Hong A, Zhou X, Gao X, Li T. (2008) PepCyber:P~PEP: a database of human protein protein interactions mediated by phosphoprotein-binding domains. Nucleic Acids Res 36(Database issue), D679-83. [article]
Jul
16
InDepth Data Analysis Report Includes:
Map to Reference Sequence
- Includes custom construction of reference database(s) for mapping – miRBase, genome, etc
- Sequence data can be aligned to any publicly available small RNA databases for annotation of known small RNA
- Unknown small RNAs can be aligned with reference genomes
Additional Bioinformatics Analysis
- Classification of all mapped reads
- Length distribution of mapped sequences
- Annotation documentation of mapped sequences
- Alignment of sequence variants such as isomirs
- Genomic and chromosomal location of sequence clusters
- Prediction of new possible miRs
- Detailed explanation of miRNA analysis results and their context
Download the PDF of the summary report here. Please contact us to obtain a complete set of sample data files.
Jun
25
Transcriptomics, or genome-wide expression profiling, aims to catalogue the complete set of RNA transcripts produced by the genome, including mRNAs, non-coding RNAs and small RNAs. Transcriptomics provides new biological insight and can be used to determine the structure of genes, their splicing patterns and other post transcriptional modifications, to detect rare and novel transcripts, and to quantify the changing expression levels of each transcript during development and under different disease conditions.
LC Sciences now provides a one-stop solution (i.e. from sample to data) for transcriptome sequencing using the latest in RNA-Seq technology. RNA-Seq is a new method and a powerful tool to identify and quantitatively decode the entire population of RNAs in your sample. Rather than sequencing RNA directly, the RNA-Seq method makes use of the latest high-throughput sequencing technology to sequence cDNA in order to reveal information about your sample’s RNA content.
The transcriptome profiling and analysis services by LC Sciences are comprehensive and provide the most complete picture of RNA content in your samples. We can help you set up and conduct a high-quality, well-controlled RNA-Seq experiment based on the latest deep-sequencing technologies. (read more…)
Apr
8
microRNA in Development & Disease
Filed Under Events | Leave a Comment
SOUTHWESTERN AND ROCKY MOUNTAIN DIVISION
of the
THE AMERICAN ASSOCIATION FOR THE ADVANCEMENT OF SCIENCE
85th ANNUAL MEETING
“EXPANDING FRONTIERS through the ADVANCEMENT OF SCIENCE”
RICE UNIVERSITY
HOUSTON, TEXAS
APRIL 8-10, 2010
microRNAs in Development & Disease Session
Preethie H. Gunaratne, Ph.D. (Chair)
Sponsors: LC Sciences, Norgen Biotek, Illumnia, Integrated DNA Technologies, Thermo Scientific
Date: 04-08-10
Time: 1.00-7.00 PM
Room: 284 BRC (BioScience Research Collaborative)
AGENDA
1.00-1.10 pm: Introduction and welcome.
1.10-1.30 pm: Preethi H. Gunaratne, Ph.D.
Assistant Professor, Dept. Biology & Biochemistry, University of Houston
Title: A Functional genomics platform for discovering novel tumor suppressor microRNAs for individualized cancer therapy
1.35-1.55 pm: Martin M. Matzuk, M.D., Ph.D.
Professor, Department of Pathology, Baylor College of Medicine
Title: Small RNAs in the female reproductive tract of mammals
2.00-2.20pm: Matthew L. Anderson, M.D., Ph.D.
Assistant Professor, Department of Obstetrics & Gynecology, Baylor College of Medicine
Title:MicroRNAs as Therapeutic Targets in Female Reproductive Tract Cancers
2.25-2.45 pm: Jason Shohet, M.D., Ph.D.
Assistant Professor, Pediatric/Hem-Onc Cell & Gene Therapy, Baylor College of Medicine
Title:A Genome-wide screen for MYCN regulated microRNAs with ChIP-seq reveal oncogenic and tumor supressor microRNAs in neuroblastoma
BREAK – 2.45-3.00 pm
3.00-3.20 pm: Soo-Kyung Lee, Ph.D.
Assistant Professor, Dept. Molecular and Cellular Biology, Baylor College of Medicine
Title: The role of an intronic microRNA family in the gene regulatory network during spinal cord development
3.25-3.45 pm: Joel Neilson, Ph.D.
Assistant Professor, Department of Molecular Physiology, Baylor College of Medicine
Title: Programs of 3′ UTR variation in normal and transformed mammalian cells.
3.50-4.10 pm. Dr. Tom Cooper, M.D.
Professor, Department of Pathology, Baylor College of Medicine
Title:MicroRNA-mediated regulation of RNA binding proteins controls a network of alternative splicing transitions during postnatal mouse heart development.
BREAK: 4.10-4.25 pm
4.25-4.45 pm: Robert J. Schwartz, Ph.D.
Professor, Department of Biology & Biochemistry, University of Houston
Title: Serum response factor micromanages heart development
4.50-5.10 pm: Austin J. Cooney, Ph.D.
Associate Professor, Department of Cell & Molecular Biology, Baylor College of Medicine
Title:miRNA regulation of pluripotency factors.
5.15-5.35 pm: Gerald Wilmink, Ph.D.
William Roach, Air Force Research Laboratory, Brooks City-Base, TX
Title: Identification and characterization of microRNAs associated with hyperthermia-induced cellular response
5.35 – 5.55 pm: David B. Corry, M.D.
Professor of Medicine and Immunology, Baylor College of Medicine
Title:The pro-inflammatory role of miRNAs: an emerging paradigm.
6.00-7.00 pm: Reception
Mar
18
Frank Breitling1 , Christopher Schirwitz2, Thomas Felgenhauer2, Ines Block2, Volker Stadler2 and Ralf Bischoff2
| (1) | Karlsruhe Institute of Technology, Helmholtzplatz 1, 76344 Eggenstein-Leopoldshafen, Germany |
| (2) | AG Chipbasierte Peptidbibliotheken, Im Neuenheimer Feld 580, 69120 Heidelberg, Germany |
LC Sciences offers a comprehensive epitope mapping service for high throughput, high-resolution identification of epitopes and other protein-protein interactions.
Through the use of overlapping peptides as epitopes on a custom synthesized addressable peptide microarray (PepArray™), we can systematically screen thousands of sequences in a single experiment. A proprietary microarray platform and advanced microfluidic technologies ensure quantitative measurements of binding events.
This combination of high-throughput capacity with quantitative measurement enables us to quickly and efficiently identify high affinity and high specificity target binding compounds.
Dec
15
LC Sciences’ microRNA microarrays cover all species for which sequence data are available in the miRBase Sequence Database and the Plant MicroRNA Database. Other suppliers are not covering miRs from the Plant MicroRNA database and their arrays covering the miRBase are somewhat out of date. Since miRBase is being continually updated, a flexible microarray platform is necessary to keep current with the latest miRBase version (14.0 released in September of 2009).
| Supplier | miRBase Version Coverage | Total miRBase Entries | miRBase Release Date |
| LC Sciences | 14.0 | 10883 | Sept 2009 |
| Agilent | 12.0 | 8619 | Sept 2008 |
| Affymetrix | 11.0 | 6396 | April 2008 |
| Exiqon | 11.0 | 6396 | April 2008 |
| Invitrogen | 9.0 | 4361 | Oct 2006 |
Dec
10
Featured Customer Publication – Expression Profile of MicroRNAs in Young Stroke Patients
Filed Under New Customer Publications | Leave a Comment
Researchers at the University of Malaya, Kuala Lumpur and the National University of Singapore demonstrate that peripheral blood miRNAs and their profiles can be developed as biomarkers in diagnosis and prognosis of cerebral ischaemic stroke. MicroRNA microarrays were utilized to detect dysregulated miRNAs even after several months from the onset of stroke in what is usually regarded as neurologically stable patients.
Tan KS, Armugam A, Sepramaniam S, Lim KY, Setyowati KD, Wang CW, Jeyaseelan K. (2009) Expression profile of MicroRNAs in young stroke patients. PLoS One 4(11), e7689. [article]
Dec
2
UNLOCKING THE SECRETS OF microRNA
Filed Under Review Article | Leave a Comment
By Anne Harding
Microarrays are a vital tool in research on microRNAs, the tiny noncoding stretches of genetic material that regulate messenger RNA. They can’t be beat for reading the microRNA “fingerprints” unique to disease states. But keeping up with this super hot field is a challenge for commercial microarray makers, and competition is fierce. (read more)
Nov
11
Researchers at the LSU Neuroscience Center have discovered a role for miRNA-146a in the evasion of Herpes simplex virus type-1 (HSV-1) from the complement system (a major first-line host defense mechanism), and the activation of key elements of the arachidonic acid cascade known to contribute to Alzheimer-type neuropathological change.
MicroRNA microarray revealed that human primary neural cells infected with HSV-1 (17syn +) showed upregulation of miRNA-146a, a brain-enriched microRNA that is associated with proinflammatory signaling in stressed brain cells and Alzheimer’s disease.
Hill JM, Zhao Y, Clement C, Neumann DM, Lukiw WJ. (2009) HSV-1 infection of human brain cells induces miRNA-146a and Alzheimer-type inflammatory signaling. Neuroreport 20(16), 1500-505. [abstract]
-
LC Sciences in the News- microRNA News
- Scientists on path to new treatments for Parkinson's July 30, 2010
- Macro Roles of microRNAs in Rett Syndrome? - rettsyndrome.org July 29, 2010
- Rosetta Genomics Names Genekor S.A Exclusive Distributor for Three ... July 29, 2010
- Alimta Mesothelioma | Rosetta Genomics Names Genekor S.A Exclusive ... July 29, 2010
- Live Cell Monitoring of hiPSC Generation and Differentiation Using ... July 29, 2010
- Thinking In Genes » Cancer Cells Show Rewired, Fragmented microRNA ... July 29, 2010
