Single Cell Analysis

Single Cell Assay & Sequencing

The Single Cell Sequencing facility is located on the 1st floor of the Barshop Building (RM1030). The core provides cost-effective and time-efficient access to cutting-edge genomic technologies and expert assistance with experimental design and data analysis. We offer two different platforms with the ability to sequence RNA, DNA and protein on a single cell level.  The services include 3’ gene expression, 3’ gene expression HT, 3’ gene expression with cell surface protein expression, 3’ gene expression multiplexing with cell hashing or multiome, 5’ gene expression, 5’ gene expression with immune profiling, 5’ gene expression with cell surface protein expression, Single Cell transposase-accessible chromatin using sequencing (ATAC-seq), Single cell multiome with ATAC & 3’ gene expression, Visium spatial gene expression library prep (Visium assay are collaborating with Shock center Pathology Core), Visium spatial FFPE gene expression library prep, and Nuclei Isolation.

Appointments are required for the 10X single cell service, and we kindly request advance notice (1 week) due to the specialized preparations involved. Please follow the 10x Genomics Procedures for all the single cell service.

10x Genomics Procedures:
1. Pre-consultation: This is mandatory for all the single cell assays. These are the topics we would discuss during consultation: sample type and number, single cell assay type, single cell or nuclei preparation, sample quality, anticipated cells numbers, sequence saturation concept, workflow of the whole project, price quote, and collaborations on the data analysis.
2. Email: confirm the submission form and reserve appointments for the assay day.
3. Assay Day: bring the sample on ice, and printed submission form. We will check the quality of the samples. Any low-quality samples will not be processed. For other assays, protocols may be modified accordingly.
4. Transfer sequencing results and discuss data analysis part.

Machine: 10X Genomics Chromium X
The latest release from 10X Genomics for single cell encapsulation, the Chromium X allows for capture of up to 20,000 cells per lane, with even higher numbers for fixed cells. Methods are available for 3’ and 5’ library prep as well as 3’ fixed cells from human and mouse. This new platform combines the well-established 10X methodology with new higher throughput methods to increase cell target number and decreasing doublet rates.

Automatic Western Protein Analyzer by WES

Simple Western assays on WES are automated, capillary-based immunoassays that overcome complexities inherent to traditional Western. WES automates Western blotting protocol steps such as antibody additions, incubations, and washes. Wes is located in Barshop RM1030. Simple Western is a gel-free, blot-free, and hands-free protein characterization solution. For more details: https://www.bio-techne.com/p/simple-western/wes_004-600#product-documents

Machine: Protein Simple Wes

For ordering questions and technical support, please contact:
Jennie Rohrer, M.Sc.
Sr. Account Executive (TX, LA, OK, AR)
ProteinSimple, a Bio-Techne brand
jennie.rohrer@bio-techne.com
Direct: +1 832 322 1292
Main: +1 888 607 9692

MESO

Meso Scale Discovery biomarker assays provide a rapid and convenient method for measuring the levels of targets within a single, small-volume sample. The MSD product line offers a diverse menu of assay kits for profiling biomarkers, cell signaling pathways, and other applications.

Machine: MESO QuickPlex SQ 120MM

The MESO QuickPlex SQ 120MM (with Methodical Mind software) is MSD’s most versatile instrument, located in Barshop RM1030. This compact system has been engineered for reliability, ease of use, and low cost of ownership. The combination of rapid read times and the ability to perform multiple, simultaneous tests on a single sample increases productivity, saves sample, and delivers results quickly. See details at: https://www.mesoscale.com/en/products_and_services/instrumentation/quickplex_sq_120mm

For training and technical support, please contact:
Stephen Gipson, Ph.D.
Field Application Scientist
Phone: (504) 400-4608
Email: sgipson@meso-scale.com

For quote and ordering questions, please contact:
Romesh A. Draviam, Ph.D.
Meso Scale Discovery
Sr. Account Manager- Midwest
Mobile: (713) 818-9948
Email: rdraviam@mesoscale.com

The kits can be check from online:
https://www.mesoscale.com/en/products_and_services/assay_kits

Core Contact

Jia Nie, PhD
Assistant Professor/Research
Office: Room 2021
Barshop Institute for Longevity and Aging Studies
University of Texas Health Science Center at San Antonio
4939 Charles Katz Dr, San Antonio, TX 78229
Phone: 210-450-7243
Email: niej@uthscsa.edu


10X Genomics Service Request Form