UMass Medical School Genomics Core
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| Microarray technology to analyze complex genetic data. Access to Affymetrix hardware and software for Gene Chip microarray. | |
UMass Medical School Flow Cytometry Core
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| Measuring the physical and chemical characteristics of cells or other biological particles. | |
UMass Medical School Deep Sequencing Core
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Sequencing by synthesis (MPSS) Solexa/Illumina-based technology, data management, computational analysis guidelines, on-site technical consultation.
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UMass Center for AIDS Research (CFAR) & Molecular Biology Core
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Discounted reagents, DNA & RNA Oligos, Plasmids, Probes, Bioinformatics Resource, DNA fragment analysis, BiaCore SPR
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| Dharmacon | |
RNAi products and technologies: siRNA, microRNA, shRNA, qPCR assays, RNAi controls, transfections, customs synthesis, ancillary reagents, siDesign center.
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| IDT | |
Oligo design and analysis tools, tutorials.
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| Genewiz | |
DNA sequencing service. Drop box in LRB office 908.
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| The RNAi Web | |
A resource center for RNA interference (RNAi) technology.
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| RNAxs | |
A site to design potent siRNA's to knock down your gene(s) of interest. Includes all the parameters that have been shown to influence RNAi efficiency in literature.
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RNA Modification Database
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A comprehensive listing of post-transcriptionally modified nuceosides form RNA.
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RNAfold
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Will predict secondary structures of single stranded RNA or DNA sequences.
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RNAhybrid
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For finding the minimum free energy hybridization of two RNA's.
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The mRNA Decay Resource
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Sharing of information, know-how, and wisdom among researchers who study mRNA decay.
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miRBase
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Searchable database of published miRNA sequences and annotation.
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Sequence Read Archive (SRA)
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| Stores sequencing data from the next generation of sequencing platforms including Roche 454 GS System, Illumina Genome Analyzer, Applied Biosystems SOLiD System, Helico Heliscope, and others. | |
UCSB Genome Browser
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The reference sequence and working draft assemblies for a large collection of genomes. Also a portal to the ENCODE project.
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Comprehensive Transposon Database
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Public research domain on genetic information (DNA sequence data), as well as dissemination of databases and computer software.
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Gene Expression Omnibus (GEO)
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| Public functional genomics data repository supporting MIAME-compliant data submissions. | |
PDB Protein Databank
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PDB archive contains information about experimentally-determined structures of proteins, nucleic acids, and complex assemblies.
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| Perl | |
| Tutorial assumes a very basic knowledge of UNIX and concentrates on how to write basic working perl programs. | |
Perl Regular Expressions
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| Perl will attempt to give you 10% of regular expressions you'll use 90% of the time. | |
Entrez Programming Utilities (eUtils)
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Tools that provide access to Entrez data outside of the regular web query interface also helpful for retrieving search results for future use in another environment. Note: to submit large queries to the NCBI data base download in batch mode.
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Unix Tutorials
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Three incredible tutorials courteously of Dr. Herve Steitz, Ph.D., former postdoc of Dr. Phillip Zamore.
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| Flybase | |
Database of Drosophila and genes and genomes.
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Bloomington Drosphila Stock Center
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BDSC collects, maintains, and distributes Drosophilia melanogaster strains for research.
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| Wormbase | |
The biology and genome of C.elegens.
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mirWIP microRNA target identification
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| Allows you to search for targets of conserved microRNAs in C. elegans. | |
Wellcome Trust Sanger Institute
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Rfam RNA database and web resource.
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