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Custom Bioinformatics Solutions

With decades of experience in transcriptomics, genomics, and related fields of biology, our bioinformatics team is empowered to tailor new bioinformatics developments to your unique project. We offer various Custom Bioinformatics Solutions, including new tool and pipeline developments, by using state-of-the-art algorithms and computational methods. With our personal and customized approach, we deliver most reliable and accurate outcomes enabling you to differentiate and drive innovation. Post-project, we provide detailed documentation and reporting, as well as secure and full transfer of custom pipeline.

DNA Sequencing

Next-generation sequencing (NGS) technologies enable researchers to investigate the genetic basis of biological function, variation, and disease with increasing depth and throughput. Various DNA sequencing approaches are available to facilitate numerous applications, including variant discovery, genome assembly, resequencing, phylogenetics, genotyping, and taxon identification.

DNA sequencing services from Lexogen can start with DNA extraction or library preparation, with optional target enrichment. We use top-quality library generation methods with customized sequencing and data analysis approaches according to individual project requirements and target applications. DNA extraction can be performed upon request, e.g., from cell pellets, fresh or flash-frozen tissues, and FFPE curls*.

We also offer various RNA sequencing options if you are also interested in studying the transcriptome.

Gene Expression Profiling

Gene Expression Profiling service provides a cost-efficient genome-wide analysis of gene expression using Lexogen’s proprietary QuantSeq technology, targeting 3’ ends of mRNA molecules. QuantSeq technology offers a perfect solution for identifying and comparing gene expression levels between experimental groups, be it treatment, different genotypes, or disease-related research. As input material, we use total RNA. No prior poly(A) enrichment or rRNA depletion is needed.

Lexogen Bioinformatics Service

Next-generation sequencing (NGS) technologies are invaluable in academic research, biotechnology, biomedical and clinical research, and the pharmaceutical industry. As NGS technologies rapidly expand and develop, it is imperative to correctly interpret increasingly complex data sets and relate them to biological functions. More than ever, it is necessary to approach NGS data analysis with tailored and creative data analysis workflows to extract the most from the datasets obtained.

Our team consists of genomic data analysis experts with experience in various NGS data analysis pipelines who are passionate about developing novel, customized workflows and solutions while keeping biology at the forefront.

We speak your language, so focus on your research and leave the data analysis to us.

LUTHOR High-Definition Single-Cell 3′ mRNA-Seq Kit with UDI 12 nt Set B1

SKU: 221.24/96

LUTHOR HD redefines the approach to single-cell RNA sequencing by offering an RNA-amplification-based kit able to detect virtually every single mRNA molecule present in the cell.

Like QuantSeq FWD, LUTHOR HD is a 3′ end mRNA-Seq kit that uses oligo(dT) primers to target polyadenylated RNAs and generate reads mapping to the 3′ end of transcripts. The two kits, however, use different protocols and technologies and are developed for different sample input amounts. While LUTHOR HD is designed for inputs ranging from 1 ng to 10 pg (equivalent to 100 cells to 1 cell) and even lower*, QuantSeq FWD is ideal for inputs ranging from 1 ng to 500 ng of total RNA.

LUTHOR HD is compatible with Lexogen’s patented 12 nt UDI Sets for maximal read rescue capabilities (no more misassigned or lost reads!).

* We have pushed the boundaries of sensitivity even further. LUTHOR HD enables to work with inputs as low as 1 pg, e.g. with cytoplasmic extracts

LUTHOR High-Definition Single-Cell 3′ mRNA-Seq Kit without UDI 12 nt Set

SKU: 204.24/96

LUTHOR HD redefines the approach to single-cell RNA sequencing by offering an RNA-amplification-based kit able to detect virtually every single mRNA molecule present in the cell.

Like QuantSeq FWD, LUTHOR HD is a 3′ end mRNA-Seq kit that uses oligo(dT) primers to target polyadenylated RNAs and generate reads mapping to the 3′ end of transcripts. The two kits, however, use different protocols and technologies and are developed for different sample input amounts. While LUTHOR HD is designed for inputs ranging from 1 ng to 10 pg (equivalent to 100 cells to 1 cell) and even lower*, QuantSeq FWD is ideal for inputs ranging from 1 ng to 500 ng of total RNA.

LUTHOR HD is compatible with Lexogen’s patented 12 nt UDI Sets for maximal read rescue capabilities (no more misassigned or lost reads!).

* We have pushed the boundaries of sensitivity even further. LUTHOR HD enables to work with inputs as low as 1 pg, e.g. with cytoplasmic extracts

For full flexibility, these LUTHOR kits are delivered without the required indices. We recommend the Lexogen UDI 12 nt Sets (Cat. No. 101 – 105)

QuDye dsDNA HS Assay kit (optimized for Qubit®) 100 assays

SKU: 12102
  • optimized for Qubit® fluorometers featuring high sensitivity (HS)
  • measurements range from 10 pg/uL to 100 ng/uL.
  • kit includes the concentrated QuDye HS assay reagent, dilution buffer, and DNA standards (0 and 10 ng/uL)

Single-cell RNA Sequencing

Single‐cell RNA sequencing (scRNA‐seq) has become the state‐of‐the‐art approach for studying the heterogeneity and complexity of transcripts within individual cells. scRNA-Seq allows us to characterize and distinguish cells at the transcriptome level, enabling us to identify rare but functionally significant cell populations in health and disease and tackle experimental questions that cannot be answered using the bulk analysis approach.

Small RNA Sequencing

Small RNAs (sRNAs) are less than 200 nt long, usually non-coding RNA molecules, that have key functional roles in mRNA turnover, translational regulation, and chromatin compaction, among others, and are important regulators of gene expression. MicroRNAs (miRNAs) are the most well-known and studied class of small RNAs, which modulate protein expression through post-transcriptional regulation. Abnormal mechanisms of miRNAs are reported in various diseases, especially cancer. Nowadays, many miRNAs serve as biomarkers of cancer.

Lexogen’s Small RNA Sequencing service allows you to get a complete small RNA profile across the entire transcriptome, from miRNAs and siRNAs to piRNAs, snoRNAs, and others.

Ultra-low Input RNA Sequencing

Ultra-low input RNA-Seq enables insight into gene expression profiles even when dealing with very low inputs. This is often the case when working with rare cell types, having access to a limited amount of material, or being interested in lowly abundant transcripts present only in a small population of cells. We have substantial experience making low and ultra-low input RNA-Seq work and providing accurate and reliable transcriptomic datasets from these limited samples. Our proprietary, high-definition technology enables us to work with RNA input as low as 10 pg and achieve unprecedented sensitivity and reproducibility, even with low-quality samples.

Whole Transcriptome Sequencing

Lexogen’s NGS Whole Transcriptome Sequencing Service is perfect if you are interested in getting insight into ALL transcripts present in your samples, both coding and noncoding, including lncRNA, snRNA, snoRNA, circRNA, etc. We utilize our proprietary technology to enable insight into all of the RNAs in your sample.

We offer both Whole Transcriptome mRNA Sequencing Service and Whole Transcriptome Total RNA Sequencing Service.

QuDye dsDNA HS Assay kit (optimized for Qubit®) 500 assays

SKU: 52102
  • optimized for Qubit® fluorometers featuring high sensitivity (HS)
  • measurements range from 10 pg/uL to 100 ng/uL.
  • kit includes the concentrated QuDye HS assay reagent, dilution buffer, and DNA standards (0 and 10 ng/uL)

Poly(A) RNA Selection Kit V1.5, 96 preps

SKU: 157.96

The Poly(A) RNA Selection Module enables the rapid and highly specific enrichment of polyadenylated RNAs from total RNA samples.

Optimized V1.5 Upgrade

The upgrade V1.5 contains new oligo(dT) Magnetic Beads (MB), compared to the V1.0 kit. The beads and solutions included in the V1.5 kit offer improved performance.

Highly Specific for Poly(A) RNA

Other RNA species (rRNA and tRNA) do not contain poly(A) sequences and therefore will not bind to the oligo(dT) beads.

Various Downstream Applications

Isolated mRNA can directly be used for RNA-Seq library preparation (e.g., CORALL RNA-Seq Library Prep kits), SAGE, CAGE, cloning, microarrays, cDNA synthesis, and others.

Rapid Turnaround

Polyadenylated RNAs can be isolated from total RNA samples within about one hour.

QuDye dsDNA HS Assay kit (optimized for Qubit®) 100 assays (incl. tubes)

SKU: 13102
  • optimized for Qubit® fluorometers featuring high sensitivity (HS)
  • measurements range from 10 pg/uL to 100 ng/uL.
  • kit includes the concentrated QuDye HS assay reagent, dilution buffer, DNA standards (0 and 10 ng/uL) and tubes

QuDye dsDNA HS Assay kit (optimized for Qubit®) 500 assays 500 (incl. tubes)

SKU: 53102
  • optimized for Qubit® fluorometers featuring high sensitivity (HS)
  • measurements range from 10 pg/uL to 100 ng/uL.
  • kit includes the concentrated QuDye HS assay reagent, dilution buffer, DNA standards (0 and 10 ng/uL) and tubes

NGS Library Quantification Standards with PCR Primers (illumina)

SKU: 30012S

Kit contents:

  • Library Standards 1
  • Library Standards 2
  • Library Standards 3
  • Library Standards 4
  • Library Standards 5
  • Library Standards 6
  • Primer Mix

(80 ul X6 dilutions)

NGS Library Quantification Standards with PCR Primers (illumina)

SKU: 30012L

Kit contents:

  • Library Standards 1
  • Library Standards 2
  • Library Standards 3
  • Library Standards 4
  • Library Standards 5
  • Library Standards 6
  • Primer Mix

(320 ul X6 dilutions)

TELL-Seq™ WGS Library Prep Kit

Standard pacage includes:

– Enzyme Mixes (box 1) – cat. No 100001

– TELL-Beads (box 2)  – cat. No 100002

– Multiplex Primers (set 1-8) – cat. No 100003

– Illimina Primers – cat. No 100004

SureSelect users will also need a UST TELL-Seq™ Target Blocker 8-Rxn Kit

TELL-Seq™ WGS Library Prep Kit HT24

HT package includes:

– Enzyme Mixes HT24 – cat. No 100011

– TELL-Beads HT24  – cat. No 100012

– Multiplex Primers (set 1-8) – cat. No 100003

– Illimina Primers HT 24- cat. No 100013

– Multiplex Primers (set 9-16) – cat. No 100009

– Multiplex Primers (set 17-24) – cat. No 100010

RiboCop rRNA Depletion Kit

RiboCop rRNA Depletion Kits enable removal of ribosomal RNA from total RNA and are compatible with all random primed Library Prep Kits such as the CORALL RNA-Seq V2 Library Prep Kits (Cat. No. 171 – 176) for whole transcriptome sequencing.

RiboCop is available for various species:

  • Human/Mouse/Rat (HMR, Cat. No. 144),
  • Human/Mouse/Rat plus Globin (HMR+Globin, Cat. No. 145),
  • Bacteria (Cat. No. 125 – 127), and
  • Yeast (Cat. No. 190)

RiboCop kits are available as stand-alone kits in different sizes (24 and 96 preps).
For convenience, RiboCop for Human/Mouse/Rat (HMR or HMR+Globin) is also available as bundle with CORALL Total RNA-Seq Library Prep Kits. For optimal performance, we recommend CORALL Total RNA-Seq V2 Bundles with RiboCop rRNA depletion (Cat. No. 183 – 186).

RiboCop for Bacteria is available with three optimized Probe Mixes for depletion of rRNA from:

  • mixed bacterial samples (META, Cat. No. 125),
  • from Gram negative bacteria (G-, Cat. No. 126),
  • or Gram positive bacteria (G+, Cat. No. 127).

New! RiboCop rRNA Depletion allows to unlock the complete yeast transcriptome and analyze non-coding RNAs.

Applications:

  • Expression analysis, incl. non-coding transcripts
  • Analysis of long non-coding RNA, snRNAs, snoRNAs, and circRNAs
  • FFPE and Biobank transcriptomics
  • Bacterial transcriptome research
  • Metatranscriptomics
  • Host-pathogen studies
  • Yeast transcriptomics

Kit Content:

  • Probe Mixes, Buffers, and Purification Beads

Small RNA-Seq Library Prep Kit for Illumina

SKU: 052,058,135.08/24/96
  • Gel-free user-friendly workflow
  • Multiplexing of up to 96 samples
  • Ready-to-sequence libraries in less than 5 hours
  • Wide input range from 50 pg to 1,000 ng RNA
  • Optimized for low RNA content samples such as plasma, serum, and urine

CORALL mRNA-Seq V2 Library Prep Kit with UDI 12 nt Set

SKU: 177-182.96/384

Whole transcriptome mRNA sequencing is perfectly suited for expression analysis and delivers gene and transcript level quantification even for low input samples.

Get the best sequencing data with CORALL mRNA-Seq V2. The kit enables fast and cost-efficient generation of stranded, UMI labelled, and unique dual indexed libraries with adjustable insert size.

CORALL mRNA-Seq V2 is a fast and flexible whole transcriptome sequencing kit with exceptional performance on low input RNA samples.

With Poly(A) Selection, including Lexogen 12 nt UDI Sets

CORALL Total RNA-Seq V2 Library Prep Kit with UDI 12 nt Set

SKU: 171-176.24/96/384

Total RNA-Seq provides the optimal coverage for samples of varying quantity and quality and is perfectly suited for analyzing FFPE and Biobank samples, long non-coding RNA or perform bacterial transcriptomics after ribosomal RNA depletion.

Get the best sequencing data with CORALL Total RNA-Seq V2. The kit enables fast and cost-efficient generation of stranded, UMI labelled, and unique dual indexed libraries with adjustable insert size. Bundles are available including rRNA depletion for human / mouse / rat ribosomal transcripts and globin mRNA for a convenient complete workflow solution.

Stand-alone Kits without rRNA Depletion, including Lexogen 12 nt UDI Sets

QuantSeq 3’ mRNA-Seq Library Prep Kit (REV) for Illumina with Custom Sequencing Primer

SKU: 225.24/96

The QuantSeq REV Kit generates Illumina-compatible 3’ mRNA-Seq libraries directly targeting the 3’ end of polyadenylated transcripts. The first nucleotide of the read- out corresponds to the genuine transcription end site. The combination of cost-efficient 3’ mRNA sequencing and authentic end site representation makes QuantSeq REV the perfect tool to investigate alternative polyadenylation sites for projects at any scale.

Applications