Annual Rate Contract for the DNA/RNA/Protein/Metabolite Sequencing and related Bioinformatics services

Electrical Items :

Sanger/Capillary Sequencing

PCR/Plasmid Sequencing single pass

PCR/plasmid, single pass, 96 well format

Nucleic Acid Extraction Services

DNA Isolation for Illumina Libraray

DNA Isolation for PacBio/Nanopore/HiC/10X Library

DNA Extraction for Genotyping

DNA extraction from environmental samples

RNA Extraction Services

Small RNA isolation for illumina Library

RNA isolation for illumina Library

RNA isolation for Pacbio Library (Isoseq)

RNA isolation from environmental Samples

Next Generation Sequencing Services Library Preparation Services ( DNA/RNA extraction included,Sequencing is not included)

PE Library for WGS with 300-450 bp insert size

PE Library for WGS with 500-700 bp insert size

PE Library for WGS with 800-1000 bp insert size

PCR Free Library PE library with 300-500 bp insert size

PE Library with 300-450 bp for WGS on Hiseq X

MP Library with 2 Kb to 10 Kb insert

Bisulfite Library for Methylome analysis

RNA-Seq/Chip-Seq Library with 300 bp insert for 2x100bp,Hiseq 4000

RNA-Seq/Chip-Seq Library with 300 bp insert for 2x100bp Hiseq 4000

smallRNA Library for sequencing on 1x50 bp

Degradome Library for sequencing on 1x50 bp

SMRTbell library CLR (>30Kb)

SMRTbell library CCS HiFi (20Kb)

PACBIO CLR Library with Upto 20Kb Insert

PACBIO IsoSeq Library upto 5 Kb

PACBIO IsoSeq Library upto 5-10 Kb

Linked read (10X Genomics) Library

HiC Library

Optical Mapping Library DLS

Optical Mapping Library NLRS

NGS Sequencing Services

Sequencing on Sequel II for 10Kb Library CLR 1Gb per genome (48 samples)

Sequencing of Sequel II CCS 20Kb library to generate 100 Gb CCS reads (Single)

Sequencing of Sequel II CCS 20Kb library to generate 200 Gb CCS reads (Dual)

Sequencing of Sequel II CCS 20Kb library to generate 300 Gb CCS reads

Sequencing of Sequel II CLR 30Kb library,SMRT cell upto 30Gb data

Sequencing of Sequel II CLR 30Kb library to generate 60Gb

Sequencing of Sequel II CLR 30Kb library to generate 100Gb

Metagenomic Sequencing Variable Region V3/V4 and ITS 3/4

Metagenomic Sequencing with Complete 16s RNA Sequencing

Metagenomic Sequencing with 1 GB Data

Metagenomic sequencing upto 4 Gb data

Metagenomic sequencing, upto 10 Gb data

Metatranscriptome Sequencing- 20-30 Million raw Reads/Sample

Targeted Amplicon Sequencing upto 20KB with atleast 60X raw coverage

Hiseq 4000 2x100bp, One Lane- 45-50 Gb raw data, with Ready to Run samples

Hiseq X 2x150bp, One Lane- 90-100 Gb raw Data with Ready to Run samples

Transcriptome Sequencing - 10Gb raw Data /Sample-100 Million Reads, 2x 100 bp, Only Raw Data

Transcriptome Sequencing - 4Gb raw Data/Sample-40 Million Reads-2X100bp PE - Only Raw Data

Transcriptome Sequencing - 10Gb raw Data /Sample-100 Million Reads-2x100bp PE -Raw Data with Standard Data Analysis

Transcriptome Sequencing - 4 Gb raw Data /Sample-40 Million Reads-2x100bp PE -Raw Data with Standard Data Analysis

Small RNA Sequencing -1x50bp 30 Million reads - Only Raw Data

Small RNA Sequencing -1x50bp 30 Million reads with Standard Data Analysis

Sequencing on Illumina - Only raw data -Lib 2X150 BP PE - 800MB to 2GB

Sequencing on Illumina - only raw data -Lib 2X150 BP PE -5 GB

Sequencing on Illumina - only raw data, 2X150 BP PE - 25 GB

Sequencing on Illumina - only raw data -Lib 2X150 BP PE - 800MB to 2GB With Standard reference based Data Analysis

Sequencing on Illumina - only raw data -Lib 2X150 BP PE -5 GB With Standard reference based Data Analysis

Sequencing on Illumina - Only raw data -Lib 2X150 BP PE - 25 GB With Standard reference based Data Analysis

Sequencing on PacBio - Only raw data -average 10 KB read length , 800MB to 2GB

Sequencing on PacBio - Only raw data -average 10 KB read length - 5 GB

Sequencing on PacBio - Only raw data upto average120 KB read length - 10 GB

Sequencing on PacBio - Raw data -average 10 KB read length - 800MB to 2GB With Standard Data Analysis

Sequencing on PacBio - Raw data -average 10 KB read length - 5 GB With Standard Data Analysis

Sequencing on PacBio - Raw data -average 10 KB read length - 10 GB With Standard Data Analysis

Sequencing of bacterial/fungi/virus/Plant/Animal on Oxford Nanopore - Only raw data -avearge 15 kb read lengths - 800MB to 2GB

Sequencing on Oxford Nanopore - Only raw data -avearge 15 kb read lengths - 5 GB

Sequencing on Oxford Nanopore - Only raw data -avearge 15 kb read lengths - 10 GB

Sequencing on Oxford Nanopore - Raw data -Lib 2X150 BP PE - 800MB to 2GB With Standard Data Analysis

Sequencing on Oxford Nanopore - Raw data -avearge 15 kb read lengths - 5 GB With Standard Data Analysis

Sequencing on Oxford Nanopore - Raw data -avearge 15 kb read lengths - 10 GB With Standard Data Analysis

Chip Sequencing - 2x100bp PE Sequencing - 5 GB - Raw Data

Chip Sequencing - 2x100bp PE Sequencing - 5 GB - Raw Data with Standard Data Analysis

Chip Sequencing - 2x100bp PE Sequencing - 8 GB - Raw Data

Chip Sequencing - 2x100bp PE Sequencing - 8 GB - Raw Data with Standard Data Analysis

Methylation/ Bisulphite Sequencing on Illumina Hiseq - 2X150 BP PE - 25 GB -Raw Data Only

Methylation/ Bisulphite Sequencing on Illumina Hiseq - 2X150 BP PE - 50 GB -Raw Data Only

Methylation/ Bisulphite Sequencing on Illumina Hiseq - 2X150 BP PE - 25 GB -Raw Data with Standarad Data Analysis

Methylation/ Bisulphite Sequencing on Illumina Hiseq - 2X150 BP PE - 75 GB -Raw Data with Standarad Data Analysis

MeDIP Sequencing with upto 10GB data

ddRAD Sequencing and Analysis on Illumina Hiseq - 80 to 120 MB Data

ddRAD Sequencing and Analysis on Illumina Hiseq - 120 to 200 MB Data

Genotyping by Sequencing 48 plex

Genotype by Sequencing 96 plex

Chloroplast/Mitochondrial Genome Sequencing of Plant-100x

Degradome sequencing and Analysis- 50 Million raw Reads

Iso-Seq Sequencing on Pac Bio Sequel with 1 CLR Lib and One SMRT Data Only (Library additional)

Iso-Seq Sequencing on Pac Bio Sequel with 1 CLR Lib and One SMRT Data with Data Analysis (Library additional)

One run on MiSeq, upto 4 GB data

One run on MiSeq, upto 16 GB data

One run on NexSeq, upto 100 Gb data

SMRT Sequencing, upto 8 to 10 GB Data

One full run of Novaseq with one sample library

One full lane of HiSeq 4000, not less than 100 GB Q30 data

One full run on Promethion, one sample library

One full run on GridION, one sample library

One full run on MiniION, one sample library

One full run of MGI Seq 200

One full run of MGI Seq 2000

Genotyping Services and Analysis

Maize Infinium 50K Array Genotyping

Cotton Infinium 70 K Array Genotyping

Tomato Infinium 8K Array Genotyping

Pepper Infinium 20K Genotyping

Wheat Infinium 90K Genotyping

Brassica infinium 90K Chip

Rice Infinium 6K Genotyping

Rice Affymetrix Axiom® 90K Genotyping

Rice Affymetrix Axiom® 50K Genotyping

Pigeonpea Affymetrix Axiom® 70K Genotyping

Wheat breeder chip Axiom 35K Genotyping

Mango Affymetrix Axiom® 70K Genotyping

Trait Mapping by QTL-Seq/Mutmap 10 X (1 Gb genome size)

KASP Marker Development (KBD)

KASP Marker Development (KOD)

Fluidigm Marker Development for 24.192 set

Fluidigm Marker Development for 96.96 set

Fluidigm IFC Genotyping, 24.192 set

Fluidigm IFC Genotyping 96.96 set

Genetic Purity Analysis 96

Immunodiagnostic Services 96 R

Immunodiagnostic Services 96 SPL

Additional Sequencing and Mapping offerings

10X Chromium Lib and Data generation Upto 50 GB raw data

10X Chromium Lib and Data generation Upto 100 GB raw data

HiC Lib and Data Generation upto 50 GB

HiC Lib and Data Generation upto 100 GB

Saphyr Optical Mapping with 1 Lib and 1 Flow cell with 100Gb data for each flow cell

Saphyr Optical Mapping with 2 Lib and 2 Flow cell with 100Gb data for each flow cell

Saphyr Optical Mapping with 3 Lib and 3 Flow cell with 100Gb data for each flow cell

Bioinformatics service (Data generation not included)

Genome wide Association study by different methods including haplotype analysis and generation of maps

Complete QTL Mapping by different algorithms/methods and related services

Whole Genome De-Novo Assembly and Annotation (Data size of 10GB data) Comprehensive Raw Data QC, Leverage a rapidly growing number of Assemblers optimized for short and long reads, HiC, 10X and Bionano data reads, assembly validation, Repeat Masking, Gene Prediction, Annotation, Pathway & Ontology Enrichment, Domain Enrichment etc

Whole Genome De-Novo Assembly and Annotation (Data size of 100GB data) Comprehensive Raw Data QC, Leverage a rapidly growing number of Assemblers optimized for short and long reads, HiC, 10X and Bionano data reads, Assembly validation, Repeat Masking, Gene Prediction, Annotation, Pathway & Ontology Enrichment, Domain Enrichment

Complete bacterial genome assembly, annotation and comparative studies, phylogeny etc

Complete fungal genome assembly, annotation, comparative analysis, phylogeny etc

Complete transcriptome analysis for one more types of RNA including assembly(denovo/ref), annotation, Differential expression, comparative analysis, splice variants, GO analysis, KEGG mapping, co-expression analysis among the datasets, target prediction etc

Complete DNA seq analysis assembly(denovo/ref), annotation, comparative analysis , SSR markers identification, etc

Complete bisulfite sequencing data analysis including scanning/distribution, GO analysis, methylated region/gene /promoter identification, plotting, graphs , comparative mapping, etc

Complete metagenome analysis including identification of genus/taxa, distribution, abundance, diversity, phylogenetics, etc

Complete assembly of organelle genomes : assembly, annotation, development of circular/linear genome, SSR identification, repeat density etc

Exome sequencing data analysis including assembly, annotation, variant analysis, etc

GBS/RAD data analysis including data filtering, clustering, variant analysis, haplotype analysis, association analysis, statistical analysis,etc

Proteomics Services

Epitope Design

Synthesis of Peptide for Modified Peptide (Phosphorylated/Methylated/Acetylated/etc.)

Synthesis of Peptide (HPLC Purified)

KLH/BSA Conjugation

BSA-EDC Conjugation for Ab Generation

FITC Conjugation

Generation of Polyclonal Antibody (in two Rabbits)

Generation of Polyclonal Antibody (in one Rabbit)

Generation of Polyclonal Antibody (in four Mice)

Generation of Polyclonal Antibody (in four Rats)

Protein A Affinity Purification of Antibody

Peptide Affinity Purification of Antibody

Double Peptide Affinity Purification of Antibody

Triple Peptide Affinity Purification of Antibody

Extension of Custom pAb Service per month per Rabbit

Extension of Custom pAb Service per month in two Rabbits

Final bleed of Custom pAb Development in one Rabbit

Final bleed of Custom pAb Development in two Rabbits

Protein Extraction Service by Gel Elution

Angiten QC Testing by SDS-PAGE

Phase-I: Anti-sera Development (in 4 Mice) for Custom mAb Production.

Phase-II: Fusion and Screening for Positive Clone for Custom mAb Production,

Phase-III: Sub-cloning and Screening for Positive Clone for Custom mAb Production

Phase-IV: Large Scale Production and Purification of mAb

IHC Testing Service for one Antibody from Paraffin Block

Processing of Tissue for IHC and Staining with one Antibody

Tissue Section and Slide Preparation from Paraffin Block

Block Preparation, Slide Preparation and Staining

Block Preparation and Slide Preparation

Codon Optimization for Gene Synthesis

Gene Synthesis (minimum 500 bp) [more bp enquire]

Gene Cloning into Expression Vector

Transformation and Protein Expression

Mass Culture for Protein Purification

Purification through Ni-NTA Chromatography

Purification for GST Tagged Protein

Additional Two-step Purification (Ion Exchange and Gel Filtration)

Protein Refolding Service

In vitro Anti-Cancer Experiment

Label-free nano-LC- MS/MS Analysis- single sample

LC/MS - single sample

multiple samples (10-25)

bulk (>25) and no result

Multiplexed protein analysis using 2-Plex iTRAQ – 120 min run

Multiplexed protein analysis using 3-Plex iTRAQ – 120 min run

Multiplexed protein analysis using 4-Plex iTRAQ – 120 min run

Multiplexed protein analysis using 5-Plex iTRAQ – 120 min run

Multiplexed protein analysis using 6-Plex iTRAQ – 120 min run

Multiplexed protein analysis using 7-Plex iTRAQ – 120 min run

Multiplexed protein analysis using 8-Plex iTRAQ – 120 min run

Multiplexed protein analysis using 02-Plex TMT – 120 min run

Multiplexed protein analysis using 03-Plex TMT – 120 min run

Multiplexed protein analysis using 04-Plex TMT – 120 min run

Multiplexed protein analysis using 05-Plex TMT – 120 min run

Multiplexed protein analysis using 06-Plex TMT – 120 min run

Multiplexed protein analysis using 07-Plex TMT – 120 min run

Multiplexed protein analysis using 08-Plex TMT – 120 min run

Multiplexed protein analysis using 09-Plex TMT – 120 min run

Multiplexed protein analysis using 10-Plex TMT – 120 min run

2D-DIGE Analysis of 2 samples + LC-MS/MS analysis of 10 protein spots

2D-DIGE Analysis of 4 samples + LC-MS/MS analysis of 10 protein spots

2D-DIGE Analysis of 6 samples + LC-MS/MS analysis of 10 protein spots

MALDI-TOF/TOF (PMF+MS/MS),Database search using Mascot, Raw data export, MS Report (in PDF) Peak list data (in mascot generic format)

(In-gel/solution Digestion + Extraction ZipTip® Desalting MALDI-TOF/TOF (PMF+MS/MS), Database search using Mascot, Raw data export, MS Report (in PDF), Peak list data (in mascot generic format).

iTRAQ 4-plex labeling and sample preparation

iTRAQ 8-plex labeling and sample preparation

Label Free Quantitative proteome analysis

De-Novo Proteome profiling: Six-enzyme digestion, UPLC-MS/MS, up to 50,000 sequencing events, 50 cm column, 90 min gradient

Six-enzyme digestion, UPLC-MS/MS, up to 150,000 sequencing events, 50 cm column, 90 min gradient. PLUS de novo assembly

UPLC-MS/MS, up to 10,000 sequencing events, 15 cm column, 20 min gradient (ID upto 1000 Proteins)

UPLC-MS/MS, up to 50,000 sequencing events, 50 cm column, 90 min gradient (ID upto 4000 Proteins)

UPLC-MS/MS, up to 150,000 sequencing events, 50 cm column, 240 min gradient (ID upto 9000 Proteins)

3 high pH fractions, UPLC-MS/MS, up to 450,000 sequencing events, 50 cm column, 3 x 240 min gradient (15000 Proteins)

Multi-enzyme digestion, 12 high pH or OGE-IEF fractions, UPLC-MS/MS, up to 1,850,000 sequencing events, 50 cm column, 12 x 240 min gradient (All proteins)

2D DIGE Preparative Gel (2 CyDye labeling)

Spot Picking: up to 96 spots per gel

LC-MS/MS on low complexity samples (1D Gel band)

LC-MS/MS on moderate complexity samples

LC-MS/MS on high complexity samples

Service - N-terminal protein and peptide sequencing (Set-up with first 5 amino acid sequencing steps)

ICP-MS analysis of plant sample

ICP-MS analysis of soil sample

ICP-MS analysis of plant sample with bioinformatics analysis

AAS analysis of plant tissue sample

XRF analyis of plant tissue sample

HPLC analysis with the appropriate standards

NEUBERG SUPRATECH REFERENCE LABORATORIES PRIVATE LIMITED

Genotypic Technology Pvt Ltd

Eurofins Genomics India Pvt Ltd

NxGenBio Life Sciences

Nucleome Informatics Pvt Ltd

VALERIAN CHEM PRIVATE LIMITED

Eurofins Genomics India Pvt Ltd

Genotypic Technology Pvt Ltd

NxGenBio Life Sciences

Clevergene Biocorp Pvt Ltd

Nucleome Informatics Pvt Ltd