Texas A&M Institute for Genome Sciences and Society (TIGSS) has established number of shared resources to support genomics research.

 

Bioinformatics:

A High Performance Computing Cluster (TIGSS HPCC) has been established in 2012 specifically tailored for Bioinformatics / Computational Biology research. The compute cluster is located in CSC building.

 

We also provide Bioinformatics consultation and computational analyses of high-throughput data, not limited to Next-generation sequencing data. We follow best practices as specified in many peer reviewed journals and protocol articles. We document every step of the analyses so that you will be able to replicate the analyses if you choose to do so. The following is the simple price structure for data analyses:

  • Initial Bioinformatics Consultation / Discussions of Project Design: FREE
  • Small assistance / Custom analysis steps / Preliminary analyses ( less than 2 hours): FREE
  • Comprehensive data analyses (Internal): $50 / hr
  • Comprehensive data analyses (External Academic / Federal): $75 / hr
  • Comprehensive data analyses (External Commercial): $100 / hr

 

Since many tools and open source software produces different outputs in different data formats, please contact us regarding your requirements.

 

Contact Kranti Konganti for more information.

 

Molecular Genomics:

Molecular Genomics Lab houses various instruments and lab equipment to support genomics-based research and is located in VMR Addition 266. Training and experimental support is available. Please visit the TAMU Core Facilities page for available services.

 

Contact Andrew Hillhouse for more information about pricing and any other details.

 

Phenotyping:

The mouse phenotyping equipment houses various instruments to measure and quantitate mouse physiology and behavior. All of the phenotyping equipment is located at the LARR building. Training and experimental support is available.

 

Contact Andrew Hillhouse for more information and regarding any other details.

 

Reserve equipment:

Most of the equipment listed below can be reserved through the iLab portal.

To use the facilities managed via the iLab system, you will need to establish an account.  For a member of a lab to be able to make requests in iLab, the lab’s PI must already be a registered user.

PIs cannot register for an account using the Login button.  To be added to the system, PIs need to send their UIN and Netid username to ilab-support@agilent.com

External users who are not eligible for a TAMU Netid can sign up or login using iLab credentials.

After you have an account, login at the CoreFacilities page and view all the services provided.

lncRNApipe

Open Source Software

lncRNApipe is a reference annotation based automated pipeline to identify non-coding RNAs, both known and novel from RNA-Seq reads. It

lncRNApipe

gQTL

Open Source Software

Multi-parental recombinant inbred populations, such as the Collaborative Cross (CC) mouse genetic reference population, are increasingly being used for analysis

gQTL

Maxwell 16 (Promega)

Molecular Biology

The Maxwell 16 Integrated System combines compact instrumentation, optimized automated methods, prefilled reagent cartridges, service and support to save time,

Maxwell 16 (Promega)

Tape Station (Agilent)

Molecular Biology

The Bio-Plex Pro Wash Station eliminates manual wash steps from Bio-Plex Assays, making them as easy as ELISAs. The wash

Tape Station (Agilent)

MinION (Oxford Nanopore)

Sequencing

Oxford Nanopore DNA sequencer for real time, long-read, and low cost sequencing. Ideal for closing gaps in de novo genome

MinION (Oxford Nanopore)

Cytation 5 (BioTek)

Cell Biology

Cell imaging multi-mode microplate reader that combines automated digital microscopy and conventional microplate detection. Includes both high sensitivity filter-based detection

Cytation 5 (BioTek)

10X Chromium

Sequencing

Chromium Single Cell 3’ performs deep profiling of complex cell populations with high-throughput digital gene expression on a cell-by-cell basis.

10X Chromium

EchoMRI-100H

Metabolic

EchoMRI-100H for body composition analysis of whole body fat, lean, free water, and total water masses in live animals weighing

EchoMRI-100H

Stortz Rodent Endoscope

Cancer

For use in small animal endoscopy for various diagnostic, surgical, and orthopedic indications

Stortz Rodent Endoscope

Heart Monitoring ECGenie

Cardiovascular

The Mouse Specifics, Inc.’s ECGenie is a rapid non-invasive solution for recording electrocardiograms (ECGs) in awake mice, rats, and guinea

Heart Monitoring ECGenie

TSE Phenomaster

Metabolic

TSE Phenomaster measures food/water intake, activity monitoring, and calorimetry/O2/CO2 measurements.

TSE Phenomaster

Hatteras Diuresis Cages

Metabolic

Unique nonwetting polymethylpentene funnel and cone design automatically separates feces and urine for accurate metabolic monitoring without urine wash-over. Exterior

Hatteras Diuresis Cages

Small Animal Stereotaxic System

Behavior

Small animal stereotaxic system provides researchers with not only greater ease, but more accurate readings than the vernier scales commonly

Small Animal Stereotaxic System

Shuttle Cages with Shock Floor

Behavior

Fully modular Habitest configuration for active and passive Avoidance experiments in rodents. With Habitest, users can create an endless variety

Shuttle Cages with Shock Floor

Vevo 3100 Ultrasound

Cancer

With a powerful combination of high frame rates and advanced image processing, the Vevo 3100 reduces speckle noise and artifacts

Vevo 3100 Ultrasound

Rotarod Test Rats and Mice

Behavior

The IITC Rotarod Test is used to assess the effect of drugs on the motor coordination or fatigue resistance on

Rotarod Test Rats and Mice

Digigait Analysis system

Behavior

Digigait Analysis System is the most widely applicable and comprehensive gait analysis instrumentation available. It can measure voluntary and treadmill

Digigait Analysis system

Coulbourn Habitest System

Behavior

HABITEST is designed to make it possible to implement most behavioral test protocols in a single system of modular test

Coulbourn Habitest System

Chatillon Force Measurement

Skeletomuscular

CHATILLON force measurement systems include handheld force, torque, and ergonomic gauges, plus mechanical, motorized and digital force testing systems. Its

Chatillon Force Measurement

Abaxis VetScan VS2 Chemistry Analyzer

Chemical

Abaxis VetScan VS2 Chemistry Analyzer is a state-of-the-art chemistry, electrolyte, immunoassay and blood gas analyzer that delivers uncompromising accuracy from

Abaxis VetScan VS2 Chemistry Analyzer

Abaxis VetScan HM5 Hematology System

Chemical

The Abaxis VetScan HM5 Color Hematology System is a fully-automated, five-part differential hematology analyzer displaying a comprehensive 22-parameter complete blood

Abaxis VetScan HM5 Hematology System

Bio-Plex 200 (Bio-Rad)

Chemical

A suspension array system that supports analysis of protein and nucleic acids in a multiplex solution detecting up to 100

Bio-Plex 200 (Bio-Rad)

Open Source Software

Open Source Software

The TIGSS High Performance Computing cluster hosts a broad range of tools such as BWA, ABySS, SOAPdenovo, Velvet, TopHat, Cufflinks,

Open Source Software

High Performance Computing

TIGSS HPC Cluster

The TIGSS High Performance Compute Cluster (HPCC) is tailored for bioinformatics and computational Biology applications, sequence assembly, alignment and analysis

High Performance Computing

Ingenuity Pathway Analysis (QIAGEN)

Commercial Software

Provides expansive suite of tools for interpretation of omic data including upstream regulators and downstream effects, cross-experiment comparison of pathways

Ingenuity Pathway Analysis (QIAGEN)

iScan (Illumina)

Sequencing

Scanner and associated equipment that supports Illumina’s broad portfolio of genetic analysis assays for genotyping, CNV analysis, DNA methylation, and

iScan (Illumina)

MiSeq (Illumina)

Sequencing

Next-gen sequencer for small sequencing projects requiring longer read length. Ideal for bacterial genomes. Can generate 36 to 250-bp reads

MiSeq (Illumina)

NextSeq 500 (Illumina)

Sequencing

Next-gen sequencer for small to mid-scale sequnecing projects of genomes, exomes, or transcriptomes. Can generate 75 to 150-bp reads for

NextSeq 500 (Illumina)

C1 Single-Cell System (Fluidigm)

Cell Biology

The C1 Single-Cell Auto Prep system employs an innovative microfluidic technology to rapidly isolate and prepare individual cells for genome

C1 Single-Cell System (Fluidigm)

Biomark HD (Fluidigm)

Molecular Biology

Integrated fluidic circuits (IFCs) for automating real-time or end-point read PCR reactions in nanoliter volumes. Common uses include high-throughput qPCR,

Biomark HD (Fluidigm)

New User Account

TIGSS HPC Cluster

Access to Texas A&M Institute for Genome Sciences and Society (TIGSS) Computational Resources is provided to all participants. By default

New User Account

CLC Genomics Workbench

Commercial Software

Comprehensive suite of tools for analysis of next-gen sequencing data including resequencing data, workflow management, read mapping, de novo assembly,

CLC Genomics Workbench