The CoreMarketplace: Epigenomics Shared Facility (ESF)

The Epigenomics Shared Facility (ESF), part of Einstein’s Center for Epigenomics and an Illumina CSPro (certified service provider) laboratory, offers massively-parallel sequencing (MPS) including fully-automated library preparation, quality control and assurance, and a number of assays to study the genome/epigenome. Data analytical services are provided by the Computational Genomics Facility.

Facility Policies

Services are offerred outside of Albert Einstein College of Medicine

Consulting is offerred outside of Albert Einstein College of Medicine

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

Services offered:

Computational - Bioinformatics

Metagenomics Analysis

Methylation Analysis

Reduced Representation Bisulfite Sequencing

RNA Modification Analysis

RNAseq

Single-Cell Analysis

Single-cell Sequencing

Facility Equipment

10X Genomics Chromium Plus Genetic Analyzer

Genetic analyzer, referred to as Chromium Controller for combining large partition numbers with a diverse barcode library to generate >100,000 barcode-containing partitions. [Product Link]

RRID:SCR_019326

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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

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Illumina NextSeq 1000 and NextSeq 2000 Sequencing Systems

Benchtop sequencers that allow you to explore new science across variety of current and emerging applications, with higher efficiency and fewer restraints. [Product Link]

RRID:SCR_020140

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Illumina NextSeq 550 System

With tunable output and high data quality, it provides flexible power you need for whole genome, transcriptome, and targeted resequencing plus ability to scan microarrays including Infinium MethylationEPIC BeadChip and other select BeadChips. [Product Link]

RRID:SCR_020141

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Oxford Nanopore MinION

Long Read Sequencing

Tecan Evo 200

Robotics

No additional equipment has been listed

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Publications

Publications associated with this facility (Click To View):

1.) Luchtel RA, Zhao Y, Aggarwal RK, Pradhan K, Maqbool SB (2022 Oct 25). ETS1 is a novel transcriptional regulator of adult T-cell leukemia/lymphoma of North American descent. Blood advances, 6(20), 5613-5624. . ID: 35675522.

2.) Ulahannan N, Cutler R, Doña-Termine R, Simões-Pires CA, Wijetunga NA, Croken MM, Johnston AD, Kong Y, Maqbool SB, Suzuki M, Greally JM (2022). Genomic insights into host and parasite interactions during intracellular infection by Toxoplasma gondii. PloS one, 17(9), e0275226. . ID: 36178892.

3.) Rahmani NE, Ramachandra N, Sahu S, Gitego N, Lopez A, Pradhan K, Bhagat TD, Gordon-Mitchell S, Pena BR, Kazemi M, Rao K, Giricz O, Maqbool SB, Olea R, Zhao Y, Zhang J, Dolatshad H, Tittrea V, Tatwavedi D, Singh S, Lee J, Sun T, Steidl U, Shastri A, Inoue D, Abdel-Wahab O, Pellagatti A, Gavathiotis E, Boultwood J, Verma A (2021 Sep 21). ASXL1 mutations are associated with distinct epigenomic alterations that lead to sensitivity to venetoclax and azacytidine. Blood cancer journal, 11(9), 157. . ID: 34548471.

4.) Johnston AD, Abdulrazak A, Sato H, Maqbool SB, Suzuki M, Greally JM, Simões-Pires CA (2020 Jun). A Cellular Stress Response Induced by the CRISPR-dCas9 Activation System Is Not Heritable Through Cell Divisions. The CRISPR journal, 3(3), 188-197. doi: 10.1089/crispr.2019.0077. ID: 33560917.

5.) Kong Y, Berko ER, Marcketta A, Maqbool SB, Simões-Pires CA, Kronn DF, Ye KQ, Suzuki M, Auton A, Greally JM (2018 Jul). Detecting, quantifying, and discriminating the mechanism of mosaic chromosomal aneuploidies using MAD-seq. Genome research, 28(7), 1039-1052. . ID: 29773658.

6.) Tufariello JM, Kerantzas CA, Vilchèze C, Calder RB, Nordberg EK, Fischer JA, Hartman TE, Yang E, Driscoll T, Cole LE, Sebra R, Maqbool SB, Wattam AR, Jacobs WR Jr (2015 Nov 17). The Complete Genome Sequence of the Emerging Pathogen Mycobacterium haemophilum Explains Its Unique Culture Requirements. mBio, 6(6), e01313-15. . ID: 26578674.

7.) Parmalee NL, Maqbool SB, Ye B, Calder B, Bowman AB, Aschner M (2015 Aug 6). RNASeq in C. elegans Following Manganese Exposure. Current protocols in toxicology, 65(), 11.20.1-11.20.17. . ID: 26250396.

8.) Berko ER, Suzuki M, Beren F, Lemetre C, Alaimo CM, Calder RB, Ballaban-Gil K, Gounder B, Kampf K, Kirschen J, Maqbool SB, Momin Z, Reynolds DM, Russo N, Shulman L, Stasiek E, Tozour J, Valicenti-McDermott M, Wang S, Abrahams BS, Hargitai J, Inbar D, Zhang Z, Buxbaum JD, Molholm S, Foxe JJ, Marion RW, Auton A, Greally JM (2014). Mosaic epigenetic dysregulation of ectodermal cells in autism spectrum disorder. PLoS genetics, 10(5), e1004402. . ID: 24875834.

9.) Gundry M, Li W, Maqbool SB, Vijg J (2012 Mar). Direct, genome-wide assessment of DNA mutations in single cells. Nucleic acids research, 40(5), 2032-40. . ID: 22086961.

10.) McLellan AS, Dubin RA, Jing Q, Maqbool SB, Olea R, Westby G, Broin PÓ, Fazzari MJ, Zheng D, Suzuki M, Greally JM (2009 Oct). The Einstein Center for Epigenomics: studying the role of epigenomic dysregulation in human disease. Epigenomics, 1(1), 33-8. doi: 10.2217/epi.09.9. ID: 22122636.

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

Associations

ABRF

Association of Biomolecular Resource Facilities

NERLSCD

Northeast Regional Life Science Core Directors

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

Metadata

Links

All the links listed resolve to this core profile

https://coremarketplace.org/?FacilityID=1686
https://coremarketplace.org/RRID:SCR_023284

Institution

Institution ROR ID: https://ror.org/05cf8a891

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

Keywords:

USEDit, ABRF, massively-parallel sequencing, fully automated library preparation, quality control and assurance, genome, epigenome, data analytical services,

Resource Type:

access service resource, service resource, core facility

Citation:

Albert Einstein College of Medicine Epigenomics Shared Core Facility (RRID:SCR_023284)

Epigenomics Shared Facility (ESF) (Genomics / Genome Analysis and Technologies)

Quicklinks:

Facility LIMS Page

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

ABRF

NERLSCD

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

Metadata

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

Facility Profile QR Code (links to this profile)

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

Contact Dr. Shahina Maqbool

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Epigenomics Shared Facility (ESF)

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