Bioinformatics Core

Welcome to the TIGSS Bioinformatics Core (TBC)

Established in 2012, TBC was created in response to the growing challenges of big data in life sciences research and industry. As biological data continues to expand, the need for specialized, comprehensive computational analysis has made bioinformatics a rapidly emerging field.

Our Services:

We offer a wide range of services, from start-to-finish sequencing data analysis to custom pipeline and software development. Our bioinformaticians bring decades of experience across diverse fields, including metagenomics, differential gene expression, cancer biology, plant biochemistry, protein structure prediction, and comparative genomics, among others.

Our mission is to provide data analysis that accelerates your research and reduces time to discovery.

Ready to work with TBC? Please fill out our Consultation Request form today for a free 1-hour consultation—we look forward to hearing from you!

Delivering Complex Analysis

Through A Three-Step Process

Step 1

Consultation

Schedule a FREE consultation to plan your experimental analysis

Step 2

Analysis

Once a work order is approved, we will begin the data analysis.

Step 3

Discussion

We will schedule a time to meet with you to discuss the analysis, hand-off data, and possible future steps.

TBC

Services

We are a leading provider of advanced bioinformatics solutions tailored to meet the needs of researchers, scientists, and organizations in the life sciences. With expertise in computational biology, data analysis, and genomics, our team of skilled bioinformaticians and data scientists is dedicated to helping you extract meaningful insights from complex biological data. We offer comprehensive, reliable solutions that drive scientific discoveries, accelerate research, and advance precision medicine. Partner with us to unlock the full potential of your biological data.

We strive to keep our pricing competitive and adapt to changes in the field to ensure the best value for you. Because our pricing is subject to change, we do not maintain a static price brochure. Below is a list of our most popular services, but a complete list can be found on iLab. For the most up-to-date information on services and pricing—or if you don’t see what you need—please fill out our Consultation Request form today for a free one-hour consultation.

To work with TBC, you must be a registered user on iLab. Below, you’ll find a list of our services and instructions on how to register.

iLab

Metagenomics

We offer expert analysis of metabarcoding data, including 16S, ITS, and custom amplicons, as well as the assembly, annotation, and analysis of shotgun metagenomic data from both short- and long-read DNA sequencing. Additionally, we provide 5-week, 1-credit workshops on shotgun metagenomic and metabarcoding data analysis, held each fall and spring semester.

Tools:
qiiime2
MetaPhlAn
Kraken
MetaSpades
Megahit
MetaBAT
BV-BRC pipelines

Genome Assembly & Annotation

We provide de novo assembly and annotation of animal, plant, bacterial, and viral genomes using short-read, long-read, and hybrid datasets. Our team employs gold-standard open-source tools to ensure high-quality results. Additionally, we offer optical genome mapping using the Bionano Saphyr system, which enables optical map-guided genome assembly with or without Hi-C data.

Tools:
Canu
Flye
MaSuRCA
SPades
Megahit
BUSCO
QUAST

Comparative Genomics

Using state-of-the-art open-source tools and methodologies, we analyze genomic data from diverse sources, including whole-genome sequencing, transcriptomics, and functional genomics. Our bioinformatics pipelines are designed to process and integrate complex genomic datasets, allowing us to identify orthologous genes, predict gene functions, analyze genomic rearrangements, detect genetic variations, and assess the evolutionary relationships between genomes.

Tools:
OrthoFinder
IQTREE
EDTA
CACTUS
Circos
ANI/AAI
Phylogenomics

Single Cell RNA-Seq Analysis (scRNA-Seq)

We provide comprehensive preprocessing of raw scRNA-seq data, including quality control assessments, expression normalization, and differential gene expression analysis. Our pipelines utilize advanced algorithms for dimensionality reduction, clustering, cell type identification, trajectory analysis, and visualization, enabling in-depth exploration of cellular heterogeneity and differentiation processes. We offer a range of services tailored to your specific research needs, whether it’s data preprocessing and quality control, cell type identification and annotation, differential expression analysis, trajectory inference, or integration of multiple datasets.

Tools:
Cell Ranger
Space Ranger
Seurat
PCA
tSNE

Total & mRNA-Seq Analysis

Whether you’re examining gene expression patterns, identifying differentially expressed genes, exploring alternative splicing events, or unraveling complex regulatory networks, our comprehensive RNA-seq analysis services equip you with the expertise and tools necessary to extract meaningful insights from your transcriptomic data. Partner with us to unlock the full potential of your RNA-seq data and gain a deeper understanding of the molecular mechanisms driving biological processes.

Tools:
Salmon
kallisto
DESeq2
EdgeR
HISAT2
BioPython

Custom Pipelining & Analysis

We recognize that each research project has unique requirements and demands tailored analysis approaches. That’s why we offer custom pipeline solutions designed to meet your specific bioinformatics needs. Whether you require data preprocessing, quality control, statistical analysis, machine learning, or visualization, our custom pipelines are built to streamline and automate your analysis workflow, saving you valuable time and effort.

Languages:
R
Python
Bash
Perl

Requirements for Working with TBC

1. iLab Account

To use our services and equipment, you must have a valid iLab account with an unexpired funding source.

Creating an iLab Account:

Go to TBC iLab.
Sign up using your TAMU or institution credentials.
Click the three-bar icon in the upper left corner (next to the Agilent Cross Lab logo).
Go to Manage Groups > My Groups.
If your lab group is not listed, click Request Group Access and follow the instructions.
Your PI or Lab/Group Manager must approve your request and add a funding source.
- PI/manager instructions

Core Acknowledgement

Publications describing research that takes place, or containing data collected from equipment in the Molecular Genomics Core should include the following statement in the acknowledgement section: “Use of the TIGSS Bioinformatics Core is acknowledged.”