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GENXMAP
GENXMAP
GENXMAP
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Transcriptome Profiling Package

Revealing gene expression, decoding biological mechanisms

Profilage Transcriptomique-Genxmap

3

Analysis Levels Covered

95%

Sequencing reads aligned to the reference transcriptome

100%

Workflow compatible with RNA-seq, RT-qPCR, dPCR, and downstream validation

Our Transcriptomic Profiling Plans

Packages (Standard):

  • Bulk RNA-seq (total RNA, mRNA, miRNA)

  • Metatranscriptomics

  • Gene expression by RT-qPCR (relative quantification)

  • Gene expression by digital PCR (absolute quantification)

Projects (Custom):

  • Single-cell RNA-seq (scRNA-seq)

  • Spatial transcriptomics

  • Exosome / extracellular RNA (cfRNA, exosomal RNA)

Why Choose Our Transcriptomic Packages?

✅ Personalized approach tailored to your samples and objectives
✅ End-to-end expertise from extraction to interpretation
✅ Proven flexibility in both technology and analysis
✅ A scientific partnership, not just a service

Decoding gene expression to unlock biological complexity

Deciphering molecular mechanisms through in-depth gene expression analysis

Le profilage transcriptomique permet d’analyser l’expression des gènes afin de mieux comprendre les processus biologiques sous-jacents, qu’il s’agisse de la régulation de voies métaboliques, des réponses à des traitements ou de l’identification de biomarqueurs spécifiques.


Chez GENXMAP, nous vous accompagnons dans cette démarche avec des solutions adaptées à vos enjeux scientifiques, que vous soyez en recherche fondamentale, en biotechnologie ou en médecine personnalisée.

Explorer le transcriptome dans toute sa richesse, du bulk RNA-seq à la transcriptomique spatiale

We offer a global and exploratory approach to the transcriptome, ideal for biomarker discovery, molecular signature characterization, or the analysis of cellular states:

  • Bulk RNA sequencing: total RNA, mRNA, or miRNA — providing expression profiles at the sample level

  • Single-cell RNA-seq: cell-resolution analysis to decipher heterogeneity with in complex populations

  • Spatial transcriptomics: preserving tissue architecture to understand the topographic organization of gene expression

Precise quantification, validation, and detection of specific transcripts

We also offer a targeted approach for the validation of exploratory results or the study of specific genes of interest

  • RT-qPCR: relative quantification of a transcript panel with high sensitivity

  • Digital PCR: ultra-sensitive detection of rare or low-abundance transcripts, with the possibility of absolute quantification

A global approach with an integrated, optimized process

End-to-end turnkey approach with personalized guidance, from nucleic acid purification to data interpretation
1. RNA Extraction 

Obtain high-quality RNA extracts, essential for your transcriptomic analyses

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Applications:

  • Extraction of RNA (total RNA, mRNA, and miRNA) from diverse matrices (cell cultures, tissues, blood, biofilms, etc.)

  • Verification of RNA quality and concentration prior to RNA-seq, qPCR, or targeted transcriptomic analyses

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Techniques:

  • Optimized extraction kits with protocols adapted to sample type and analytical objectives, including purification steps and removal of residual genomic DNA

  • Nanodrop: rapid measurement of RNA concentration and purity (260/280 and 260/230 ratios)

  • Qubit: sensitive and precise quantification of total RNA, including low-concentration samples

  • Fragment Analyzer / TapeStation: assessment of RNA integrity (RIN/RQN), essential for RNA-seq and transcriptomic applications

2. Library Preparation and Quality Control

Prepare your RNA-seq libraries and ensure their quality for high-performance sequencing

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Applications:

  • Preparation of samples for RNA-seq sequencing

  • Global or targeted transcriptomic analyses

  • Differential gene expression studies

  • Identification of novel transcripts

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Techniques:

  • Library preparation kits adapted to RNA type (total RNA, polyA+, messenger RNA, or small RNAs) and study requirements

  • Fragment Analyzer / TapeStation: verification of library size and quality, detection of potential dimers or abnormal profiles

  • Qubit: precise quantification of libraries prior to sequencing

  • Library-specific qPCR: functional quantification of sequencing-ready libraries, ensuring optimal yield and homogeneous coverage

3. Next-Generation Sequencing (NGS)

Perform your RNA-seq sequencing with rigorous quality control and actionable results

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Applications:

  • Sequencing of total RNA, polyA+ RNA, or small RNAs

  • Differential expression analyses

  • Identification of novel transcripts

  • Transcriptomic profiling across different species and experimental conditions

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Techniques:

  • NovaSeq 6000 (Illumina): platform tailored for transcriptomic projects

  • Paired-end sequencing (2×100 bp or 2×150 bp) with sequencing depth adjusted to study objectives (20 to 100 million reads per sample)

4. Bioinformatics & Biostatistics

Leverage your sequencing data with our tailored bioinformatics and biostatistics analyses

Applications:

  • Processing and analysis of NGS data

  • Identification of genes or signaling pathways of interest

  • Differential expression analyses

  • Clustering and functional interpretation

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Techniques:

  • Read quality control of raw sequencing data (FastQC) and adapter/quality trimming.

  • Alignment to the reference genome.

  • Expression quantification (delivery of a normalized count matrix )

  • Differential expression (DEGs): identification using DESeq2/edgeR with outputs including log2 fold change and adjusted p-values.

  • Functional annotation & pathway enrichment (GO, KEGG, Reactome).

  • Exploratory analysis & visualization: PCA, heatmaps, clustering, custom figures and reports.
     

Our Ready-to-Use Packages

Optimized, ready-to-use workflows...
Our solutions, your project!
Package Bulk RNA-Seq-Genxmap
Bulk RNA-seq Package (total RNA, mRNA, miRNA)
Check our shop for pricing and ordering options.
*For any order ≥ 24 samples

Proposed Configuration

  • Target: Complete transcriptome (polyA mRNA)

  • Samples: Cells, tissues, biopsies, biological fluids

  • Methodology:

    • QC: RNA quantification (Qubit), integrity check (Bioanalyzer/Tapestation RIN ≥7), genomic DNA removal

    • Total RNA: library preparation with poly(A) selection

    • Sequencing: Illumina (2×100 bp, ~20M reads/sample)

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  • Bioinformatics: QC and primary analysis → differential analysis → results integration → network analysis → synthesis & final reporting with publication-ready visualizations

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  • Deliverables: FASTQ & BAM/BAI files + count matrices (CSV/XLSX) + differential results & enrichment analyses (XLSX) + reports and result visualizations


Options: Microfluidic or plate-based partitioning; deep sequencing; fusion/splicing detection; clinical or multi-omics co-analysis; ribodepletion; specialized kits for low RNA integrity or low-/ultra-low input RNA.

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Package métatranscriptomique-Genxmap
Metatranscriptomic Sequencing Package
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*For any order ≥ 48 samples

Proposed Configuration

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  • Target: Total microbial RNA (expressed mRNA, rRNA-depleted)

  • Samples: Active microbiota (gut, skin, soils, biofilms)

  • Methodology:

    • Microbial RNA extraction

    • Post-extraction quality control (quantity, purity, integrity; RIN ≥7)

    • rRNA depletion

    • RNA-seq library preparation

    • Sequencing: Illumina NovaSeq 6000 (2×100 bp, ~20M reads/sample)

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  • Bioinformatics: QC/filtering → microbial transcriptome assembly → functional annotation → expressed gene quantification → active metabolic pathway analysis → result visualization

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  • Deliverables: FASTQ files + QC reports; gene/pathway expression matrices; functional profiles (heatmaps, PCoA, enrichment analyses); PDF summary report

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Options: Multi-omics integration (DNA + RNA); increased sequencing depth; differential analyses (treatment response, experimental conditions); post-analysis meeting (60 min) for results presentation and discussion

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Package RT-qPCR-Genxmap
RT-qPCR Gene Expression Package (relative quantification)
Check our shop for pricing and ordering options.
*For any order ≥ 48 samples

Proposed Configuration

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  • Target: Targeted expression (genes of interest + reference genes)

  • Samples: Total RNA from cells, tissues, or fluids

  • Methodology:

    • QC: purity (A260/280), absence of genomic DNA

    • RT: cDNA synthesis

    • qPCR: TaqMan (ΔΔCt method)

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  • Analysis: Normalization to housekeeping genes → calculation of relative variation → visualizations

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  • Deliverables: Ct tables + relative expression ratios + PDF report

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Options: Independent validation by RNA-seq; TaqMan multiplex; reference gene stability analysis; SYBR Green chemistry

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Package dPCR-Genxmap
Digital PCR Gene Expression Package (absolute quantification)
Check our shop for pricing and ordering options.
*For any order ≥ 48 samples

Proposed Configuration

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  • Target: Targeted expression (genes of interest + reference genes)

  • Samples: Total RNA from cells, tissues, or fluids

  • Methodology:

    • QC: purity (A260/280), absence of genomic DNA

    • RT: cDNA synthesis

    • dPCR: TaqMan (absolute quantification method)

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  • Analysis: Positive/negative counting → estimation of absolute concentration → calculation of target ratios

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  • Deliverables: Absolute values (copies/µL) + tables + quantification charts + PDF report

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Options: Rare mutation detection; clinical biomarker validation; target multiplexing

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Kickstart your project today

Tell us what you need — we’ll get back to you with a bespoke solution.

Our DNA

We leverage our expertise and technologies to help our partners and clients turn biological complexity into reliable, actionable data.

From method to impact

Discover how we work at GENXMAP

Our solutions

Precise and advanced services, cutting-edge technologies, and reliable analyses.
Our rigorous approach ensures detailed results, essential for your scientific discoveries and clinical applications.

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