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BioInfoExperts LLC

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Thibodaux, Louisiana, US

About BioInfoExperts LLC

BioInfoExperts laboratory services focuses on the genetic analysis of viral and bacterial pathogens, and can perform whole genome sequencing, ultradeep targeted sequencing, transcriptome sequencing, as well as other pathogen-specific protocols like single genome sequencing.

Our staff is skilled in data... Show more »

BioInfoExperts laboratory services focuses on the genetic analysis of viral and bacterial pathogens, and can perform whole genome sequencing, ultradeep targeted sequencing, transcriptome sequencing, as well as other pathogen-specific protocols like single genome sequencing.

Our staff is skilled in data generation and assembly using both Illumina and PacBio sequencing platforms, with off-the-shelf kits like Nextera and TruSeq, as well as developing optimized protocols for special projects when premade kits are not adequate. We have sequenced many different viral and bacterial pathogens, with extensive work in the HIV field. Other pathogens include the viruses Hepatitis C, Zika, rotavirus, norovirus and influenza, as well as bacteria like MRSA, cholera, tuberculosis and salmonella.

We will work closely with you and your team to produce high-quality accurate sequencing in an efficient and affordable manner. Our bioinformatics team will be there to assist once the sequencing is finished to assemble genomes, extract informative polymorphisms for phylogenetic analysis, perform clustering analysis on your deep sequencing data, produce a concise list of dysregulated genes for transcriptomics, among other options depending on the specific goals of your project.

We have an extensive publication history, and work closely with our clients and collaborators from the initial planning of experiments until publication of the data. We also provide grant writing and manuscript development services, and we pride ourselves in forming long lasting collaborations with groups around the world. Please contact us today so we can discuss your project and help you get the data you need to move your research forward.

Recent Publications

  • Complex patterns of Hepatitis-C virus longitudinal clustering in a high-risk population. Rose R, Lamers SL, Massaccesi G, Osburn W, Ray SC, Thomas DL, Cox AL, Laeyendecker O. Infect Genet Evol. 2018 Mar; 58:77-82. PMID:29253674
  • Early EBV genomic diversity and convergence towards the B95.8 genome in primary infection. Weiss ER, Lamers SL, Henderson JL, Melnikov A, Somasundaran M, Garber M, Selin L, Nusbaum C, Luzuriaga K. J Virol. 2017 Nov 1. pii: JVI.01466-17. PMID:29093087
  • The spleen is an HIV-1 sanctuary during cART. Nolan D, Rose RR, Rodriguez P, Salemi M, Singer EJ, Lamers S, McGrath M. AIDS Res Hum Retroviruses. 2017 Oct 30. PMID:29084441
  • Brain-specific HIV Nef identified in multiple patients with neurological disease. Lamers SL, Fogel GB, Liu ES, Barbier AE, Rodriguez CW, Singer EJ, Nolan DJ, Rose R, McGrath MS. J Neurovirol. 2017 Oct 23.
  • Eradication of HIV from Tissue Reservoirs: Challenges for the Cure. Rose R, Nolan DJ, Maidji E, Stoddart CA, Singer EJ, Lamers SL, McGrath MS. AIDS Res Hum Retroviruses. 2017 Aug 7.
  • Insights into the Impact of CD8+ Immune Modulation on Human Immunodeficiency Virus Evolutionary Dynamics in Distinct Anatomical Compartments by Using Simian Immunodeficiency Virus-Infected Macaque Models of AIDS Progression. Rife Magalis B, Nolan DJ, Autissier P, Burdo TH, Williams KC, Salemi M. J Virol. 2017 Nov 14;91(23).
  • Using Viral Gene Sequences to Compare and Explain the Heterogeneous Spatial Dynamics of Virus Epidemics. Dellicour S, Rose R, Faria NR, Vieira LFP, Bourhy H, Gilbert M, Lemey P, Pybus OG. Mol Biol Evol. 2017 Oct 1;34(10):2563-2571.
  • Complete Genome Sequences of Identical Zika virus Isolates in a Nursing Mother and Her Infant.
    Blohm GM, Lednicky JA, Márquez M, White SK, Loeb JC, Pacheco CA, Nolan DJ, Paisie T, Salemi M, Rodríguez-Morales AJ, Morris JG Jr, Pulliam JRC, Carrillo AS, Plaza JD, Paniz-Mondolfi AE. Genome Announc. 2017 Apr 27;5(17).
  • Predicted coreceptor usage at end-stage HIV disease in tissues derived from subjects on antiretroviral therapy with an undetectable plasma viral load. Lamers SL, Fogel GB, Liu ES, Nolan DJ, Salemi M, Barbier AE, Rose R, Singer EJ, McGrath MS. Infect Genet Evol. 2017 Apr 6
  • Paucity of Intact Non-Induced Provirus with Early, Long-Term Antiretroviral Therapy of Perinatal HIV Infection. Rainwater-Lovett K, Ziemniak C, Watson D, Luzuriaga K, Siberry G, Petru A, Chen Y, Uprety P, McManus M, Ho YC, Lamers SL, Persaud D. PLoS One. 2017 Feb
  • A method for obtaining simian immunodeficiency virus RNA sequences from laser capture microdissected and immune captured CD68+ and CD163+ macrophages from frozen tissue sections of bone marrow and brain. Mallard J, Papazian E, Soulas C, Nolan DJ, Salemi M, Williams KC. J Immunol Methods. 2017 Mar;442:59-63. doi: 10.1016/j.jim.2017.01.003. Epub 2017 Jan 14.
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Our Services (34)


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SMRT Sequencing

Single Molecule Real-Time Sequencing
Price on request

BioInfoExperts utilizes the new Pacific Biosciences Sequel System. Sequel SMRT Cells contain 1 million zero-mode waveguides delivering up to 10 billion bases of long-read sequence per whole-genome analysis run, and up to 20 Gb in RNA isoform sequencing (Iso-Seq). PacBio now supports multiplexing options to reduce costs. With... Show more »

BioInfoExperts utilizes the new Pacific Biosciences Sequel System. Sequel SMRT Cells contain 1 million zero-mode waveguides delivering up to 10 billion bases of long-read sequence per whole-genome analysis run, and up to 20 Gb in RNA isoform sequencing (Iso-Seq). PacBio now supports multiplexing options to reduce costs. With longer reads and multiple passes on the same read (circular consensus sequencing), SMRT sequencing provides enhanced genome reconstruction, ultradeep and accurate targeted sequencing, and novel isoform variant detection.
Sequel System applications:
• Create high-quality whole genome de novo assemblies of eukaryotic organisms
• Survey large population cohort studies for structural variants
• Sequence full-length transcriptomes or targeted transcripts
• Target regions not currently accessible by other technologies
• Detect genomic variation in complex populations on all size scales
• Detect epigenetic modifications

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PacBio Sequel System Oncology Infectious Disease Next Generation Sequencing Variant Calling Whole Genome Sequencing Transcriptomics PacBio Show 8 more tags Show less

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Isoform Sequencing

Price on request

The isoform sequencing (Iso-Seq) application generates full-length cDNA sequences — from the 5’ end of transcripts to the poly-A tail — eliminating the need for transcriptome reconstruction using isoform-inference algorithms. The PacBio Sequel system increases the output for each SMRT cell and eliminates the need for separate... Show more »

The isoform sequencing (Iso-Seq) application generates full-length cDNA sequences — from the 5’ end of transcripts to the poly-A tail — eliminating the need for transcriptome reconstruction using isoform-inference algorithms. The PacBio Sequel system increases the output for each SMRT cell and eliminates the need for separate size-selected library preparations. Both advances significantly reduce cost. Cost estimation will be calculated based on the depth of coverage (amount of data) needed and number of samples. Turnaround time for sequencing is typically under 30 days from the receipt of samples; data analysis will take additional time and is directly related to existing annotation for reference genomes.
Sample Requirements:
• Full-length transcript sequencing requires intact, non-degraded full length transcripts to prepare cDNA libraries.
• Total RNA amount is ≥ 10 μg, at a concentration of 200 ng/μl or greater, and must be free of DNA contamination.
• RIN value ≥ 8.0 and pure (OD260/280 ≥ 1.8, OD260/230 ≥ 1.8)

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PacBio Sequel System Oncology RNA sequencing Transcriptomics RNA Frozen Tissue Human tissue mRNA Primary Cells Tumor tissue Novel Transcriptomes Transcript Variants PacBio Show 13 more tags Show less

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RNA Extraction and Purification

Price on request

We provide manual extraction services for RNA, miRNA, and DNA from many sample types. This service includes RNA quality control and quantification on both the Qubit 3.0 and Agilent Tapestation. We also can provide cDNA synthesis for quantitative PCR (qPCR) and perform qPCR or droplet-digital PCR (ddPCR) for you. We have... Show more »

We provide manual extraction services for RNA, miRNA, and DNA from many sample types. This service includes RNA quality control and quantification on both the Qubit 3.0 and Agilent Tapestation. We also can provide cDNA synthesis for quantitative PCR (qPCR) and perform qPCR or droplet-digital PCR (ddPCR) for you. We have extensive experience extracting viral RNA from a variety of sample types. We also prepare high-quality RNA extractions for transcriptomic and RNAseq experiments. Typical turnaround time for RNA extraction is 1-3 business days from receipt of the samples.

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Human Infectious Disease Hepatitis C Influenza Zika virus infection HIV FFPE tissue Frozen Tissue Human tissue Biofluids Fresh Tissue Plasma Show 12 more tags Show less

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Genomic DNA Extraction

Price on request

We can provide genomic DNA extraction services, with affordable prices and high-quality high-yield results. Prices and turnaround time will depend on your preferred method of extraction and number of samples. Typical turnaround time for gDNA extraction is 1-3 days from receipt of the samples.

We can provide genomic DNA extraction services, with affordable prices and high-quality high-yield results. Prices and turnaround time will depend on your preferred method of extraction and number of samples. Typical turnaround time for gDNA extraction is 1-3 days from receipt of the samples.

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Qubit 2.0 fluorometer Agilent TapeStation Infectious Disease MRSA infection Hepatitis C Zika virus infection HIV Tuberculosis FFPE tissue Frozen Tissue Fresh Tissue Bacteria Show 12 more tags Show less

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Bioinformatics

Price on request

Bioinformatics covers a large number of services and if you have a job, it is likely we can handle it.
We have a strong combined background in:

  • statistics
  • genetic analysis
  • computational analysis
  • computer code development

Bioinformatics covers a large number of services and if you have a job, it is likely we can handle it.
We have a strong combined background in:

  • statistics
  • genetic analysis
  • computational analysis
  • computer code development
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Whole Genome Sequencing

Price on request

BioInfoExperts focuses on whole genome sequencing of viral and bacterial pathogens utilizing the Illumina MiSeq and NextSeq platforms, as well as the PacBio Sequel system. We provide various library preparation services, including off-the-shelf kits and custom-designed protocols as needed. Turnaround times vary with your project... Show more »

BioInfoExperts focuses on whole genome sequencing of viral and bacterial pathogens utilizing the Illumina MiSeq and NextSeq platforms, as well as the PacBio Sequel system. We provide various library preparation services, including off-the-shelf kits and custom-designed protocols as needed. Turnaround times vary with your project requirements. As an example, a 2x300bp PE miSeq v3 run with 24 multiplexed Nextera libraries prepared from supplied bacterial genomic DNA typically is finished with 10 business days from receipt of samples.

Sample requirements:
DNA (0.1-1ug) should be high-molecular weight and high purity (A260/280:1.8-2.0, A260/230: ≥ 1.8) to obtain optimal results. RNA should have RIN >8.0. QC services are available.

Past sequencing projects have included:
Virus: HIV, HCV, Zika, norovirus, rotavirus and more.
Bacteria: MRSA, salmonella, tuberculosis, V. cholera, and others.

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Illumina MiSeq Illumina NextSeq 500 PacBio Sequel System Illumina Nextera XT DNA Library Prep Kit Illumina Nextera DNA Library Prep Kit Kapa Hyper PCR-Free sample prep kit Infectious Disease MRSA infection Hepatitis C Influenza Zika virus infection HIV Tuberculosis Whole Genome Sequencing Genomics Illumina Illumina HiSeq Illumina NextSeq PacBio Bacteria Show 20 more tags Show less

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Nucleic Acid Services

Price on request

We provide a large range of Nucleic Acids Services including DNA/RNA/miRNA isolation, quantification, purification, imaging, size selection and many more. Please tell us about your project and we will help find the right application to fit your needs.

We provide a large range of Nucleic Acids Services including DNA/RNA/miRNA isolation, quantification, purification, imaging, size selection and many more. Please tell us about your project and we will help find the right application to fit your needs.

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Qubit 2.0 fluorometer Agilent TapeStation Qiagen Zymo Research PAXgene RNA PAXgene DNA Infectious Disease RNA DNA mRNA miRNA gDNA Show 12 more tags Show less

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Infection Tracking

Price on request
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Sequencing Data Analysis and Management

Price on request
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Microbiome Studies

Price on request
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Gene Expression Analysis

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Software Development

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Reagent Development

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Phylogenetic Analysis

Price on request
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Biostatistical Analysis

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Genotyping and Gene Expression Assays

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Genotyping Services

Genotyping Services

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DNA Services

Price on request

DNA Services

DNA Services

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Biochemistry & Molecular Biology

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Biochemistry & Molecular Biology Services

Biochemistry & Molecular Biology Services

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Computer Science, Software Development, and IT Services

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Software Development and IT Services

Software Development and IT Services

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Cell Culture Media and Reagents

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Cell Culture Media and Reagents Services

Cell Culture Media and Reagents Services

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Cells and Tissues

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Cells and Tissues Services

Cells and Tissues Services

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Biology

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Biology Services

Biology Services

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Computational Modeling

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Computational Modeling Services

Computational Modeling Services

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Biostatistics & Bioinformatics

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Biostatistics & Bioinformatics Services

Biostatistics & Bioinformatics Services

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Statistical Analysis

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Statistical Analysis Services

Statistical Analysis Services

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Data Analysis

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Data Analysis Services

Data Analysis Services

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Data Services

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Data Services

Data Services

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Next Generation Sequencing (NGS)

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Next Generation Sequencing (NGS) Services

Next Generation Sequencing (NGS) Services

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DNA Sequencing

Price on request

DNA Sequencing Services

DNA Sequencing Services

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Microbiology Assays

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Microbiology Assays Services

Microbiology Assays Services

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Microbiology

Price on request

Microbiology, Virology, and Parasitology Services

Microbiology, Virology, and Parasitology Services

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RNA Sequencing

Price on request

RNA Sequencing Services

RNA Sequencing Services

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DNA Extraction and Purification

Price on request

DNA Extraction and Purification Services

DNA Extraction and Purification Services

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RNA Services

Price on request

RNA Services

RNA Services

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David Nolan

Laboratory Director
  • Positive review for Nucleic Acid Services:

    February 2019

    "Great communication, quick turnover time, high quality results."

BioInfoExperts LLC has not received any endorsements.