Novogene Corporation

We are currently running a $199 promotion including library preparation and sequencing (20 million paired-end 150bp reads).

For projects with 24 or more samples, we are offering:

• $189 per sample mRNA-seq (20M PE150 reads on the Illumina NovaSeq platform.)

• $199 per sample mRNA-seq with bioinformatics including differential gene expression analysis. Full content of free analysis described in bolded text below.

Service Details:

• 250-300 bp insert cDNA library, non strand-specific. Stranded option available.
• Illumina HiSeq PE150 standard, SE50 option available.
• Q30≥80% for PE150, Q30≥90% for SE50

Comprehensive analysis available with a low package price, or can be ordered independently for analysis only projects.

Bioinformatics Analysis Content:

With Reference Genome
• Data Quality Control: filtering reads containing adapter or with low quality
• Statistics Analysis of Data Production and Quality
• Mapping Reads to Reference Genome
• Correlation analysis (For biological replicates only)
• Differential Expression Analysis (two or more groups of samples)
• GO Enrichment Analysis of Differentially Expressed Genes (DEGs) (two or more groups of samples)
• KEGG Pathway Enrichment Analysis of Differentially Expressed Genes (DEGs) (two or more groups of samples)
• Protein Protein Interaction Analysis
• Functional Annotation of Transcription Factors
• Functional Annotation of Oncogene
• Alternative Splicing (AS) Quantification and Differential Expression Analysis
• Identification of anti－Transcript (Strand Specific Library Only)
• TSS and TSS Prediction (Strand Specific Library Only)
• SNP/InDel Analysis
• Fusion Gene Analysis (for tumor sample and cancer cell line)

Without Reference Genome
• Data quality control: filtering reads containing adapter or with low quality
• Statistics analysis of data production and quality
• De novo transcriptome assembly
• Gene functional annotation using seven databases (NR, NT, KOG, KO, Swiss-Prot, GO and PFAM)
• GO, COG, KEGG classification
• SNP&InDel analysis
• SSR analysis
• Gene expression analysis
• Correlation analysis (For biological replicates only)
• Differential expression analysis (two or more groups of samples)
• GO enrichment analysis of differentially expressed genes (DEGs) (two or more groups of samples)
• KEGG pathway enrichment analysis of differentially expressed genes (DEGs) (two or more groups of samples)
• Protein-protein interaction analysis

Promotional pricing valid through 30 November 2018

We are currently running a promotion for human Whole-Exome Sequencing (hWES):

$299 (50X coverage) and $399 (100X coverage) for full-service exome capture with the industry-standard Agilent SureSelect Human All Exon V6 Kit, library preparation, and sequencing.

Service Details:

• Agilent SureSelect Human All Exon V6 Kit (58M)
• Illumina HiSeq PE150
• Q30≥80%
• 6G raw data guaranteed (50X on-target coverage)
• Turnaround time 22 working days after samples pass QC (for ≤ 20 samples)

Comprehensive Analysis Available at an Additional $49/Sample

Bioinformatics Analysis Content, Standard:

• Data quality control
• Alignment with reference, statistics of sequencing depth and coverage
• SNP and InDel calling, annotation and statistics
• Somatic SNP/InDel/CNV calling, annotation and statistics (For paired tumor samples)

*Promotion valid through 31 October 2018

Sequencing Strategy
• 350 bp insert DNA library
• HiSeq X platform or NovaSeq 6000 platform, paired-end 150 bp

10X Genomics Chromium is also available for whole genome sequencing.

Turnaround Time
• 15 working days after verification of sample quality (without data analysis)
• Additional 8 working days for data analysis

Recommended Sequencing Depth
• For tumor tissues: 50×, adjacent normal tissues and blood 30×
• For rare diseases: 30~50×

Bioinformatics Analysis includes:
• Data quality control: filtering out reads containing adapters or with low quality
• Alignment with reference genome, statistics of sequencing depth and coverage
• SNP/InDel/SV/CNV calling, annotation and statistics
• Somatic SNP/InDel/SV/CNV calling, annotation and statistics (paired tumor samples)

Whole Genome Sequencing on HiSeq X Ten

Service Details:
• Available for human, plants and animals
• Illumina HiSeq X Ten (PE150)
• 350 bp insert DNA library
• Q30≥80%
• Recommended coverage: 30X-50X for rare diseases; 50X for tumor tissues and 30X for adjacent normal tissues and blood

Comprehensive analysis available at a low package price.

Bioinformatics Analysis Content includes:
• Data quality control: filtering reads containing adapters or with low quality
• Alignment with reference genome
* Statistics of sequencing depth and coverage
• SNP/InDel/SV/CNV calling, annotation and statistics
• Somatic SNP/InDel/SV/CNV calling, annotation and statistics (for paired tumor samples)

Novogene is one of the first few companies in the world employing the powerful Illumina HiSeq X Ten for whole genome sequencing. We possess one of the largest NGS capacities in the world with two sets of HiSeq X Ten systems at our California and China labs. Our extensive experience and bioinformatics capabilities enable us to expertly meet customer needs with timely turn-around at highly competitive prices.

We are offering heavily-discounted rates on NovaSeq sequencing when purchasing by lane or flow cell. TWO-WEEK service turnaround time.

We are able to offer the following sequencing options on the Illumina NovaSeq platform:
• S2 Flow Cell, PE150. Expected data output: 1000 Gigabases
• S4 Lane sequencing, PE150. Expected data output: 800 Gigabases
• S4 Flow Cell, PE150. Expected data output: 3200 Gigabases

System specifications: 167Gb – 6Tb output range, 1.6 – 20 B reads per run, and 2 x 150 bp max read length

Introduced by Illumina in January 2017, the NovaSeq Series provides tremendous scalability and flexibility to accommodate diverse applications and project sizes, for virtually any sequencing method, genome, and scale of project. The NovaSeq system extends services previously unavailable on HiSeq X Ten, such as expression profiling, whole transcriptome analysis, microbial genome, exome, low pass WGS, etc., while accommodating rapid turnaround, flexible configurations and cost effectiveness. The addition of 25 NovaSeq sequencers not only expands Novogene’s sequencing capacity, but also greatly reduces our sequencing cycle times. With NovaSeq, we are able to sequence up to 48 human whole genomes and produce 6Tb of data per single run as short as 40 hours. We also upgraded our data storage and computing power to match NovaSeq’s high capacity and efficiency.

System specifications: 1.6 – 1.8 Tb output range, 5.3 – 6 B reads per run, and 2 x 150 bp max read length

Acceptable sample types: WGS library

The HiSeq X System is the world’s first to break the $1000 genome barrier for human whole genome sequencing (WGS). By providing ultra-high throughput and a low price point per genome, the HiSeq X System provides an opportunity to reshape the economics and scale of WGS for both human and non-human species. The HiSeq X System is especially powerful for population-scale WGS. Equipped with 30 powerful Illumina HiSeq X systems, Novogene is capable of sequencing up to 54,000 human genomes per year. Being one of the first few companies adopting HiSeq X Ten since early 2014, we have extensive experience providing whole genome sequencing service on this powerful system, having successfully sequenced tens of thousands of genomes with high quality results.

Whole Genome Sequencing on HiSeq X Ten

Service Details:
• Available for human, plants and animals
• Illumina HiSeq X Ten (PE150)
• 350 bp insert DNA library
• Q30≥80%
• Recommended coverage: 30X-50X for rare diseases; 50X for tumor tissues and 30X for adjacent normal tissues and blood

Comprehensive analysis available at a low package price.

Bioinformatics Analysis Content includes:
• Data quality control: filtering reads containing adapters or with low quality
• Alignment with reference genome
* Statistics of sequencing depth and coverage
• SNP/InDel/SV/CNV calling, annotation and statistics
• Somatic SNP/InDel/SV/CNV calling, annotation and statistics (for paired tumor samples)

Novogene is one of the first few companies in the world employing the powerful Illumina HiSeq X Ten for whole genome sequencing. We possess one of the largest NGS capacities in the world with two sets of HiSeq X Ten systems at our California and China labs. Our extensive experience and bioinformatics capabilities enable us to expertly meet customer needs with timely turn-around at highly competitive prices.

At Novogene, We are pleased to offer customers SMRT Sequencing using Pacbio Sequel.

Please contact us for more detail regarding the service.

Basic Data Analysis and Advanced Data Analysis are both offered by our professional bioinformatics team.

Bioinformatics Analysis Content Includes:
With Reference Genome
• Data quality control: filtering reads containing adapter or with low quality
• Statistics analysis of data production and quality
• Mapping reads to reference genome
• Novel gene prediction
• Alternative splicing analysis
• SNP/InDel analysis
• Identification of anti-transcript (strand-specific library only)
• TSS and TSS prediction (strand-specific library only)
• Gene expression quantification
• Correlation analysis (for biological replicates only)
• Differential expression analysis (two or more groups of samples)
• GO enrichment analysis of differentially expressed genes (DEGs) (two or more groups of samples)
• KEGG pathway enrichment analysis of differentially expressed genes (DEGs) (two or more groups of samples)
• Protein-protein interaction analysis
• Transcription factor analysis of differentially expressed genes(DEGs) (two or more groups of samples)

Without Reference Genome
• Data quality control: filtering reads containing adapter or with low quality
• Statistics analysis of data production and quality
• De novo transcriptome assembly
• Gene functional annotation using seven databases (NR, NT, KOG, KO, Swiss-Prot, GO and PFAM)
• GO, COG, KEGG classification
• SNP&InDel analysis
• SSR analysis
• Gene expression analysis
• Correlation analysis (For biological replicates only)
• Differential expression analysis (two or more groups of samples)
• GO enrichment analysis of differentially expressed genes (DEGs) (two or more groups of samples)
• KEGG pathway enrichment analysis of differentially expressed genes (DEGs) (two or more groups of samples)
• Protein-protein interaction analysis

Service Details
• 130-470 bp insert DNA library
• Illumina HiSeq PE250
• Data guarantee: Each sample not less than 30,000 tags, 50,000 tags or 100,000 tags.
• Recommend strategy: 30,000 tags, 50,000 tags, or 100,000 tags

Bioinformatics Analysis Content
• Data split and reads merging
• Data quality control: data filtration and chimera removal
• OTUs cluster and phylogenetic relationship construction
• Species annotation
• Alpha diversity analysis (Observed species, Goods coverage, Chao1, ACE, Shannon, Simpson Index)
• Beta diversity analysis (Unifrac distance heatmap, PCA, PCoA, UPGMA)

Service Details:
• 250~300 bp insert strand specific library with rRNA removal (Ribo-ZeroTM Magnetic Kit)
• Illumina HiSeq PE150
• Q30>=80%
• Recommended data amount: ≥10 Gb/sample

Bioinformatics Analysis Content:
• Data quality control: filtering reads containing adapter or with low quality
• Statistics of data production and quality
• Alignment with reference genome
• Reference based reconstruction of transcripts
• Filtering of candidate lncRNA
• Alternative splicing analysis
• SNP/Indel calling
• LncRNA target gene prediction
• Expression quantification analysis
• LncRNA mRNA comparative analysis

Service details:
• 18-24 bp insert cDNA Library
• Illumina HiSeq SE50
• Q30>=90%
• Recommend data amount: ≥10M reads/sample

Bioinformatics Analysis Content:
• Data quality control: filtering reads containing adapter or with low quality
• Summarize the length distribution of small RNA
• Analyze common and specific sequences between two samples
• Align small RNA to reference genome
• Identify known miRNA
• Identify rRNA, tRNA, snRNA, snoRNA and Non-coding RNA
• Identify repeat associated small RNAs (repeat annotation information of the reference genome should be • provided)
• Align small RNA to mRNA, exon and intron
• Predict novel miRNAs and their secondary structures by Mireap from unannotated small RNAs
• Analyze the expression pattern of known miRNAs
• Analyze the base bias of miRNA
• Classify and annotate of small RNAs

We offer different NGS service with different outputs.

Please contact us to learn more about our NGS service on our X ten, Novaseq, and HiSeq 4000.

Service Details
• 300 bp insert DNA library
• Illumina HiSeq PE150
• Q30 ≥ 80%.
• Data Guarantee: Each sample generates at least 5-10 Gb raw data
• Recommended Strategy: 6 Gb raw data or 12 Gb raw data

Bioinformatics Analysis Content
• Data quality control: filtering reads containing adapter or with low quality, filtering host genome sequences
• Assembly
• Species annotation (microorganic sequences extracted from NCBI NR database 2014-10-19)
• Gene prediction
• Gene annotation（KEGG, eggNOG, CAZy database）
• Species/Gene/Function abundance statistics and cluster analysis
• Comparative analysis (among samples)

Service Details:
• 250~300-bp insert bisulfite treated DNA library
• Illumina HiSeq PE150
• Q30≥80%
• Recommend sequencing depth: ≥ 30X

Bioinformatics Analysis Content:
• Data quality control (filtering reads containing adapter or with low quality; Q20, Q30, error rate distribution, GC distribution, total bases)
• Mapping to reference genome (mapping rate, duplication rate, sequencing depth, reads coverage)
• mCs detection, methylation level calculation.
• Methylation level and frequency distribution in different sequence context (CG, CHG, CHH)
Methylation level and frequency distribution in different chromosomes
• Methylation level and frequency distribution in different functional elements (promoter, 5'UTR, exon, intron, 3'UTR)
• Differentially methylated regions (DMRs) detection and annotation
• Function enrichment (Gene Ontology and KEGG Pathway) of DMR-associated genes
• Visualization of BS Seq data

Service Details
• 100-50 bp insert DNA library (depending on peak distribution)
• Illumina HiSeq SE50
• Q30≥80%
• Recommend sequencing depth: ≥ 20 M reads

Bioinformatics Analysis Content:
• Data quality control (get rid of reads containing adapter or with low quality; Q20, Q30, error rate distribution, GC distribution, total bases)
• Mapping onto reference genome (mapping rate, reads distribution)
• Peak calling
• Motif prediction
• Peak annotation (downstream or overlapping gene, TSS)
• Functional analysis of peak-associated genes (Gene Ontology, pathway)
• Visualization of ChIP-seq data

Service Details:
• Illumina HiSeq PE150
• Data quality guarantee:
o Simple genome: Contig N50 ≥ 30 Kb, Scaffold N50 ≥ 1 Mb
o Mammal (except Chiroptera) or bird genome: Contig N50 ≥ 30 Kb, Scaffold N50 ≥ 3 Mb
o Complex genome: Contig N50 ≥ 20 Kb, Scaffold N50 ≥ 300 Kb

Bioinformatics Analysis Content:
• Genome survey
• Genome assembly
• Genome annotation
• Comparative genome analysis
• Personalized analysis

Sequencing Strategy

3 libraries: 1-2K, 2-3K and 3-6K OR customized according to your species of interest

PacBio Sequel system

Data Quality Guarantee
Guaranteed 5G, 10G, or 20G data package, based on project design
Sample Requirements

Total RNA amount: ≥ 10 μg; RNA concentration: ≥ 200 ng/μl
RIN value ≥ 8.0
OD260/280 ≥ 1.8, OD260/230 ≥ 1.8, without degradation and DNA contamination

Turnaround Time
Within 12 weeks from verification of sample quality with data analysis

Service Details
• 200bp insert cDNA library
• HiSeq PE150
• 20 M clean reads for general depth
• 40 M clean reads for high depth
• Q30≥80%
• Recommended data amount: >=20M reads/sample
• Bioinformatics analysis content same as regular RNA Seq

Service Details:
• 350bp insert DNA library
• Illumina HiSeq PE150
• Q30≥80%
• Bioinformatics analysis content same as regular whole genome or whole exome sequencing

We offer different NGS service with different outputs.

Please contact us to learn more about our NGS service on our X ten, Novaseq, and HiSeq 4000.

RNA Sequencing Services