The CoreMarketplace: UMMS Deep Sequencing Core

Search |

Add/Edit My Facility

Show Full Listing

Search the CoreMarketplace

Searching

All Facilities >> University of Massachusetts Medical School >> UMMS Deep Sequencing Core (Sequencing)

UMMS Deep Sequencing Core (Sequencing)

Facility Details

About This Facility

Services and Equipment

Publications

Awards & Associations

Metadata

University of Massachusetts Medical School

222 Maple Ave

Rose Gordon Bldg

Shrewsbury, MA 01545

United States of America

http://www.umassmed.edu/nemo/

Quicklinks:

https://coremarketplace.org/RRID:SCR_017702

Primary Contact:

Ellie Kittler

Last Updated: 04/25/2022

Facility RRID

RRID:SCR_017702

cite this

Facility Details

The Deep Sequencing Core provides a next-generation sequencing (NGS) platform for investigators using Massively Parallel Sequencing (MPS), aka Parallel Sequencing by Synthesis, or "Deep Sequencing". The core analyzes genomic DNA, DNA fractions (e.g. ChIP), cDNA, RNA, and many other library types using an Illumina HiSeq 4000 or MiSeq/MiSeq Dx. Deep Sequencing generates a large number of short overlapping sequences as well as quantifying the occurrence of each individual sequence within the library. The Deep Sequencing Core provides assistance with sample preparation (also a service offering) and bioinformatics analysis. The Core offers sequencing on a Pacific Biosciences Sequel II as well through the PacBio Core Enterprise.

Facility Policies

Services are offerred outside of University of Massachusetts Medical School

Consulting is offerred outside of University of Massachusetts Medical School

(To see more facility information, click the in the upper right)

Services offered:

Assays and Measurements

Computational - Bioinformatics

Molecular Construct Services

Nucleic Acid Extraction

RNA analysis

RNAseq

Sequencing - DNA Sequencing

Sequencing - Next Generation Sequencing (NGS)

Single-cell Sequencing

Whole Exome Sequencing

Whole Genome Sequencing

Facility Equipment

Illumina HiSeq 3000/HiSeq 4000 Systems

Leverage patterned flow cell technology to provide rapid, high performance sequencing Perform production scale, high throughput exome or transcriptome sequencing projects quickly and economically. [Product Link]

RRID:SCR_020127

cite this

Illumina MiSeq System

Access focused applications such as targeted resequencing, metagenomics, small genome sequencing, targeted gene expression profiling, and more. MiSeq reagents enable up to 15 Gb of output with 25 million sequencing reads and 2 Ã— 300 bp read lengths. [Product Link]

RRID:SCR_020134

cite this

Illumina MiSeqDx System

FDA regulated, CE IVD marked, NGS platform for in vitro diagnostic IVD testing. [Product Link]

RRID:SCR_020137

cite this

Agilent 5300 Fragment Analyzer System

Fragment Analyzer System can separate up to 48 or 96 samples in parallel. [Product Link]

RRID:SCR_019411

cite this

Pacific BioSciences Sequel II

(To see more facility information, click the in the upper right)

Publications

Publications associated with this facility (Click To View):

1.) Tran NT, Lecomte E, Saleun S, Namkung S, Robin C, Weber K, Devine E, Blouin V, Adjali O, Ayuso E, Gao G, Penaud-Budloo M, Tai PWL (2022 Apr). Human and Insect Cell-Produced Recombinant Adeno-Associated Viruses Show Differences in Genome Heterogeneity. Human gene therapy, 33(7), 371-388. doi: 10.1089/hum.2022.050. PMID: 35293222.

2.) Moroz LL, Kocot KM, Citarella MR, Dosung S, Norekian TP, Povolotskaya IS, Grigorenko AP, Dailey C, Berezikov E, Buckley KM, Ptitsyn A, Reshetov D, Mukherjee K, Moroz TP, Bobkova Y, Yu F, Kapitonov VV, Jurka J, Bobkov YV, Swore JJ, Girardo DO, Fodor A, Gusev F, Sanford R, Bruders R, Kittler E, Mills CE, Rast JP, Derelle R, Solovyev VV, Kondrashov FA, Swalla BJ, Sweedler JV, Rogaev EI, Halanych KM, Kohn AB (2014 Jun 5). The ctenophore genome and the evolutionary origins of neural systems. Human gene therapy, 33(7), 371-388. doi: 10.1089/hum.2022.050. PMID: 24847885.

3.) Xie L, Gazin C, Park SM, Zhu LJ, Debily MA, Kittler EL, Zapp ML, Lapointe D, Gobeil S, Virbasius CM, Green MR (2012). A synthetic interaction screen identifies factors selectively required for proliferation and TERT transcription in p53-deficient human cancer cells. Human gene therapy, 33(7), 371-388. doi: 10.1089/hum.2022.050. PMID: 23284306.

4.) Iben JR, Epstein JA, Bayfield MA, Bruinsma MW, Hasson S, Bacikova D, Ahmad D, Rockwell D, Kittler EL, Zapp ML, Maraia RJ (2011 Jun). Comparative whole genome sequencing reveals phenotypic tRNA gene duplication in spontaneous Schizosaccharomyces pombe La mutants. Human gene therapy, 33(7), 371-388. doi: 10.1089/hum.2022.050. PMID: 21317186.

5.) Li C, Vagin VV, Lee S, Xu J, Ma S, Xi H, Seitz H, Horwich MD, Syrzycka M, Honda BM, Kittler EL, Zapp ML, Klattenhoff C, Schulz N, Theurkauf WE, Weng Z, Zamore PD (2009 May 1). Collapse of germline piRNAs in the absence of Argonaute3 reveals somatic piRNAs in flies. Human gene therapy, 33(7), 371-388. doi: 10.1089/hum.2022.050. PMID: 19395009.

(To see more facility information, click the in the upper right)

Metadata

Links

All the links listed resolve to this core listing

https://coremarketplace.org/?FacilityID=133
https://coremarketplace.org/RRID:SCR_017702

SciCrunch Data Imports (data maintained by https://scicrunch.org)

Keywords:

High, throughput, sequencing, library, building, service, core

Resource Type:

core facility, access service resource, service resource

Citation:

Massachusetts University Medical School Deep Sequencing Core Facility (RRID:SCR_017702)

(To see more facility information, click the in the upper right)

Add/Edit Facility Listing

Adding a facility listing to the CoreMarketplace will automatically assign your facility an RRID (more info). You will be notified of your RRID by email once it has been assigned.

Please enter the following information:

First Name: *

Last Name: *

Email Address: *

Facility Institution/Company

(If your institution is not listed, please leave blank)

UMMS Deep Sequencing Core (Sequencing)

Quicklinks:

Primary Contact:

Facility RRID

Facility Details

Facility Policies

(To see more facility information, click the in the upper right)

Services offered:

Facility Equipment

(To see more facility information, click the in the upper right)

Publications

(To see more facility information, click the in the upper right)

Associations

NERLSCD

CTSA

ABRF

(To see more facility information, click the in the upper right)

Metadata

SciCrunch Data Imports (data maintained by https://scicrunch.org)

(To see more facility information, click the in the upper right)

Add/Edit Facility Listing

Adding a facility listing to the CoreMarketplace will automatically assign your facility an RRID (more info). You will be notified of your RRID by email once it has been assigned.

Please enter the following information:

Contact Ellie Kittler

Contact The CoreMarketplace

UMMS Deep Sequencing Core

The CoreMarketplace is a joint venture with: