Bioinformatics Core

Overview of Services

In the era of Big Data, increasing number of cutting-edge biomedical researchers deal with terabytes of data with 20-30 software packages. Our goal is to provide the hub for interdisciplinary research in genomics, proteomics, and computational biology to the Augusta University community. Provided with diverse background and through experience in bioinformatics of our research faculty, we aim to catalyze the collaboration across the campus for high impact studies.

Services:
Analysis: Analysis of high-throughput data including genomics, proteomics, metabolomics, and microbiome data. For standard analysis pipeline.
Consulting: Project development, study design, and tailored analysis beyond standard analysis pipeline.
Training: Training session in bioinformatics topics

Leadership

Ashok Sharma	Associate Professor	Core Director	706-721-6335	assharma@augusta.edu
Richard McIndoe	Professor	CBGM Director	706-721-3542	rmcindoe@augusta.edu

Kevin Coombes	Professor	GCC Core Director	706-721-7657	kcoombes@augusta.edu

Location and hours of operation

Hours	Location
9AM-5PM M-F	1120 15th Street, CA-4100 Augusta, GA,30912

Links and Resources

Contacts

Name	Role	Phone	Email	Location
Ashok Sharma, PhD	Associate Professor	706-721-6335	assharma@augusta.edu	CA4094
Tae Jin Lee	Assistant Professor	706-721-3515	talee@augusta.edu	CA2007
Arnoneel Sinha	Postdoctoral Fellow	706-721-3515	arsinha@augusta.edu	CA2007
Kevin Coombes	Professor	706-721-7657	kcoombes@augusta.edu
Sergei Bombin	Assistant Research Scientist		sbombin@augusta.edu	CN3139
Diego Antonio Fernandez Fuentes	Data Analyst	706-729-2419	DieFernandez@augusta.edu	CN139
Dhwani Sangani	Research Programmer Analyst	706-721-5495	dsangani@augusta.edu	CA4147

Service list

Name	Description	Price
16S rRNA sequencing / 18S rRNA sequencing (Sample size 41-60)	• Differential taxa abundance in multivariate models • Supervised classification • Predicted metagenomics	Inquire
16S rRNA sequencing / 18S rRNA sequencing (Sample size 1-20)	• Differential taxa abundance in multivariate models • Supervised classification • Predicted metagenomics	Inquire
16S rRNA sequencing / 18S rRNA sequencing (Sample size 21-40)	• Differential taxa abundance in multivariate models • Supervised classification • Predicted metagenomics	Inquire
Bioinformatics Customized Project	We will charge by the hour	Inquire
Bottom-up proteomics / Top-down proteomics (Sample size 21-40)	• Differential expression analysis • Summary figures (Visualization of data) • Functional enrichments – KEGG, GO terms, etc	Inquire
Bottom-up proteomics / Top-down proteomics (Sample size 1-20)	• Differential expression analysis • Summary figures (Visualization of data) • Functional enrichments – KEGG, GO terms, etc	Inquire
Bottom-up proteomics / Top-down proteomics / Glyco-proteomics (Sample size 41-60)	• Differential expression analysis • Summary figures (Visualization of data) • Functional enrichments – KEGG, GO terms, etc	Inquire
bulk ATAC, CUT&RUN, CUT&Tag	The fee is per analysis project with up to 15 samples	Inquire
Bulk RNA-Seq ( Sample Size 41-60)	• Differential expression analysis • Summary figures (Visualization of data) • Functional enrichments – KEGG, GO terms, etc	Inquire
Bulk RNA-Seq (Sample Size 1-20)	• Differential expression analysis • Summary figures (Visualization of data) • Functional enrichments – KEGG, GO terms, etc	Inquire
Cell Ranger Analysis of Multi-modal data (Sample Size 1-10)	GEX+ATAC, GEX+VDJ,GEX+ADT, etc. Fees are applied per project/Lab for shared sequencing runs, unless all data's final destination is the same.	Inquire
Cell Ranger Analysis of Single-modal data (Sample Size 1-10)	GEX, ATAC, VDJ, etc. Fees are applied per project/Lab for shared sequencing runs, unless all data's final destination is the same.	Inquire
Custom Data Analysis	The final charges will be calculated based on the number of hours required and are subject to mutual agreement	Inquire
Demultiplexing	Convert BCL to FASTQ and demultiplex samples. $15 per sample; Capped at $300 per Lab/project for one sequencing run	Inquire
GC-MS/MS / Luminex (Sample size 41-60)	• Differential expression analysis • Summary figures (Visualization of data) • Functional enrichments – KEGG, GO terms, etc	Inquire
GC-MS/MS / Luminex (Sample size 1-20)	• Differential expression analysis • Summary figures (Visualization of data) • Functional enrichments – KEGG, GO terms, etc	Inquire
GC-MS/MS / Luminex (Sample size 21-40)	• Differential expression analysis • Summary figures (Visualization of data) • Functional enrichments – KEGG, GO terms, etc	Inquire
Letter of Support	Request for the Core Lab to provide a letter of support for the investigator as requested for the grant proposal.	Inquire
RNAs-protein interaction / RNA-miRNA interaction / CLIP-Seq (1-20)	• Protein binding site • Motif analysis	Inquire
RNAs-protein interaction / RNA-miRNA interaction / CLIP-Seq (Sample size 21-40)	• Protein binding site • Motif analysis	Inquire
RNAs-protein interaction / RNA-miRNA interaction / CLIP-Seq (Sample size 41-60)	• Protein binding site • Motif analysis	Inquire
Single-cell Multi-modal analysis	GEX+TCR, GEX+ATAC, CITE-seq	Inquire
Single-cell RNA-Seq ((sample Size 01-05)/subject)	Quality Control Alignment Reporter gene expression	Internal $1,500.00 each External $2,250.00 each Commercial $3,000.00 each
Single-cell RNA-Seq ((sample Size 06-10)/subject)	Quality Control Alignment Reporter gene expression	Internal $2,000.00 each External $3,000.00 each Commercial $4,000.00 each
Single-cell RNA-Seq ((sample Size 11-20)/subject)	Quality Control Alignment Reporter gene expression	Internal $2,500.00 each External $3,750.00 each Commercial $5,000.00 each
Spatial Transcriptomics Data Analysis (Sample Size: (01-05)/subject)	Celltype annotation and visualization Neighbour analysis and cell-cell communication	Inquire
Spatial Transcriptomics Data Analysis (Sample Size: (06-10)/subject)	Celltype annotation and visualization Neighbour analysis and cell-cell communication	Inquire
Spatial Transcriptomics Data Analysis (Sample Size: (11-20)/subject)	Celltype annotation and visualization Neighbour analysis and cell-cell communication	Inquire
Transcription factor binding / Histone modifications (Sample size 21-40)	• Peak calling • Motif enrichment	Inquire
Transcription factor binding / Histone modifications (Sample size 41-60)	• Peak calling • Motif enrichment	Inquire
Transcription factor binding / Histone modifications (Sample size 1-20)	• Peak calling • Motif enrichment	Inquire
Whole Genome Sequencing / Exome-Seq / DNA Methylation (Sample size 21-40)	• Germline and somatic variant calling and annotation • Copy Number Variation analysis • Structural Variation analysis	Inquire
Whole Genome Sequencing / Exome-Seq / DNA Methylation (Sample size 41-60)	• Germline and somatic variant calling and annotation • Copy Number Variation analysis • Structural Variation analysis	Inquire
Whole Genome Sequencing / Exome-Seq / DNA Methylation (Sample size 1-20)	• Germline and somatic variant calling and annotation • Copy Number Variation analysis • Structural Variation analysis	Inquire

Search available services: View: by category alphabetically

Name	Description	Price
▼ ► RNA-Seq (2)
Bulk RNA-Seq (Sample Size 1-20)	• Differential expression analysis • Summary figures (Visualization of data) • Functional enrichments – KEGG, GO terms, etc	Inquire
Bulk RNA-Seq ( Sample Size 41-60)	• Differential expression analysis • Summary figures (Visualization of data) • Functional enrichments – KEGG, GO terms, etc	Inquire
▼ ► Proteomics Analysis (3)
Name	Description	Price
Bottom-up proteomics / Top-down proteomics (Sample size 1-20)	• Differential expression analysis • Summary figures (Visualization of data) • Functional enrichments – KEGG, GO terms, etc	Inquire
Bottom-up proteomics / Top-down proteomics (Sample size 21-40)	• Differential expression analysis • Summary figures (Visualization of data) • Functional enrichments – KEGG, GO terms, etc	Inquire
Bottom-up proteomics / Top-down proteomics / Glyco-proteomics (Sample size 41-60)	• Differential expression analysis • Summary figures (Visualization of data) • Functional enrichments – KEGG, GO terms, etc	Inquire
▼ ► scRNA-Seq Analysis (3)
Name	Description	Price
Single-cell RNA-Seq ((sample Size 01-05)/subject)	Quality Control Alignment Reporter gene expression	Internal $1,500.00 each External $2,250.00 each Commercial $3,000.00 each
Single-cell RNA-Seq ((sample Size 06-10)/subject)	Quality Control Alignment Reporter gene expression	Internal $2,000.00 each External $3,000.00 each Commercial $4,000.00 each
Single-cell RNA-Seq ((sample Size 11-20)/subject)	Quality Control Alignment Reporter gene expression	Internal $2,500.00 each External $3,750.00 each Commercial $5,000.00 each
▼ ► Micobiome Analysis (3)
Name	Description	Price
16S rRNA sequencing / 18S rRNA sequencing (Sample size 1-20)	• Differential taxa abundance in multivariate models • Supervised classification • Predicted metagenomics	Inquire
16S rRNA sequencing / 18S rRNA sequencing (Sample size 21-40)	• Differential taxa abundance in multivariate models • Supervised classification • Predicted metagenomics	Inquire
16S rRNA sequencing / 18S rRNA sequencing (Sample size 41-60)	• Differential taxa abundance in multivariate models • Supervised classification • Predicted metagenomics	Inquire
▼ ► Metabolic Analysis (3)
Name	Description	Price
GC-MS/MS / Luminex (Sample size 1-20)	• Differential expression analysis • Summary figures (Visualization of data) • Functional enrichments – KEGG, GO terms, etc	Inquire
GC-MS/MS / Luminex (Sample size 21-40)	• Differential expression analysis • Summary figures (Visualization of data) • Functional enrichments – KEGG, GO terms, etc	Inquire
GC-MS/MS / Luminex (Sample size 41-60)	• Differential expression analysis • Summary figures (Visualization of data) • Functional enrichments – KEGG, GO terms, etc	Inquire
▼ ► CHIP-Seq Analysis (3)
Name	Description	Price
Transcription factor binding / Histone modifications (Sample size 1-20)	• Peak calling • Motif enrichment	Inquire
Transcription factor binding / Histone modifications (Sample size 21-40)	• Peak calling • Motif enrichment	Inquire
Transcription factor binding / Histone modifications (Sample size 41-60)	• Peak calling • Motif enrichment	Inquire
▼ ► CLIP-Seq Analysis (3)
Name	Description	Price
RNAs-protein interaction / RNA-miRNA interaction / CLIP-Seq (1-20)	• Protein binding site • Motif analysis	Inquire
RNAs-protein interaction / RNA-miRNA interaction / CLIP-Seq (Sample size 21-40)	• Protein binding site • Motif analysis	Inquire
RNAs-protein interaction / RNA-miRNA interaction / CLIP-Seq (Sample size 41-60)	• Protein binding site • Motif analysis	Inquire
▼ ► DNA-Seq Analysis (3)
Name	Description	Price
Whole Genome Sequencing / Exome-Seq / DNA Methylation (Sample size 1-20)	• Germline and somatic variant calling and annotation • Copy Number Variation analysis • Structural Variation analysis	Inquire
Whole Genome Sequencing / Exome-Seq / DNA Methylation (Sample size 21-40)	• Germline and somatic variant calling and annotation • Copy Number Variation analysis • Structural Variation analysis	Inquire
Whole Genome Sequencing / Exome-Seq / DNA Methylation (Sample size 41-60)	• Germline and somatic variant calling and annotation • Copy Number Variation analysis • Structural Variation analysis	Inquire
▼ ► Bioinformatics Customized Project (1)
Name	Description	Price
Bioinformatics Customized Project	We will charge by the hour	Inquire
▼ ► Data Processing (4)
Name	Description	Price
Cell Ranger Analysis of Multi-modal data (Sample Size 1-10)	GEX+ATAC, GEX+VDJ,GEX+ADT, etc. Fees are applied per project/Lab for shared sequencing runs, unless all data's final destination is the same.	Inquire
Cell Ranger Analysis of Single-modal data (Sample Size 1-10)	GEX, ATAC, VDJ, etc. Fees are applied per project/Lab for shared sequencing runs, unless all data's final destination is the same.	Inquire
Custom Data Analysis	The final charges will be calculated based on the number of hours required and are subject to mutual agreement	Inquire
Demultiplexing	Convert BCL to FASTQ and demultiplex samples. $15 per sample; Capped at $300 per Lab/project for one sequencing run	Inquire
▼ ► Letter of Support (1)
Name	Description	Price
Letter of Support	Request for the Core Lab to provide a letter of support for the investigator as requested for the grant proposal.	Inquire
▼ ► Single-cell Multi-modal analysis (1)
Name	Description	Price
Single-cell Multi-modal analysis	GEX+TCR, GEX+ATAC, CITE-seq	Inquire
▼ ► Spatial Transcriptomics Data Analysis (3)
Name	Description	Price
Spatial Transcriptomics Data Analysis (Sample Size: (01-05)/subject)	Celltype annotation and visualization Neighbour analysis and cell-cell communication	Inquire
Spatial Transcriptomics Data Analysis (Sample Size: (06-10)/subject)	Celltype annotation and visualization Neighbour analysis and cell-cell communication	Inquire
Spatial Transcriptomics Data Analysis (Sample Size: (11-20)/subject)	Celltype annotation and visualization Neighbour analysis and cell-cell communication	Inquire
▼ ► bulk ATAC, CUT&RUN, CUT&Tag (1)
Name	Description	Price
bulk ATAC, CUT&RUN, CUT&Tag	The fee is per analysis project with up to 15 samples	Inquire