Product Description Combined.pdf

Product: Gene expression kits and reagents

Purchase Description:

Salient characteristics All deliverables required under this contract shall be packaged, marked and shipped in accordance with Government specifications. At a minimum, all deliverables shall be marked with the contract number and Contractor name. The

Contractor shall guarantee that all required materials shall be delivered in immediate usable and acceptable condition.

Vendor must be able to provide these specifications for GEM-X Epi Flex Kit (384 samples) Must enable high-throughput single-cell epigenomic profiling using fixed or preserved cells/nuclei with multiplexed sample processing (up to 384 samples per run)

• Must support sample multiplexing and indexing to allow pooling of large numbers of samples prior to GEM generation and library construction

• Must be compatible with 10x Genomics Chromium X and Chromium iX instruments for

GEM-X workflow execution

• Must utilize gel bead-in-emulsion (GEM) technology for single-cell partitioning and barcoding

• Must provide single-cell resolution with cell-specific barcodes and unique molecular identifiers (UMIs) for downstream analysis

• Must generate sequencing-ready libraries enabling chromatin accessibility (ATAC-like)

Item Description Cat no Quantity GEM-X Epi Multiome, 16 samples 1000979 1.00 GEM-X Universal 3' Gene Expression v4, 48 samples 1000711 4.00 Dual Index Kit TT Set A, 96 rxn 1000215 2.00 Chromium GEM-X Single Cell 3' Chip Kit v4, 4 chips 1000690 6.00

Item Description Cat no Quantity GEM-X Flex v2 Human, 384 samples 1000929 1.00 GEM-X Flex Gel Bead & Library Kit v2, 4 rxn 1000919 3.00 GEM-X Flex Gene Expression Chip Kit, 4 chips 1000791 1.00 Dual Index Kit TS Set A, 96 rxn 1000251 1.00 Chromium GEM-X Single Cell 3' Chip Kit v4, 4 chips 1000690 5.00 Dual Index Kit TT Set A, 96 rxn 1000215 2.00 GEM-X Universal 3' Gene Expression v4, 48 samples 1000711 3.00

Shipping 1.00 readouts and/or epigenomic signal profiling at single-cell resolution

• Must support Illumina-compatible sequencing libraries including standard read structure (cell barcode + UMI, sample index, and genomic insert)

• Must support scalable workflows designed for high-throughput processing, minimizing batch effects through multiplexing and unified processing of many samples

• Must require input of appropriately prepared single-cell suspensions or nuclei, including compatibility with fixed samples as specified by manufacturer protocols

• Must be compatible with downstream bioinformatics pipelines for demultiplexing, alignment, and single-cell epigenomic data analysis (e.g., 10x Genomics analysis software ecosystem)

Vendor must be able to provide these specifications for Gel Bead & Library Kit v2, 4 rxn Must provide gel beads containing barcoded oligonucleotides for single-cell partitioning and molecular indexing in a droplet-based microfluidics workflow

• Must support generation of uniquely barcoded gel beads-in-emulsion (GEM) for single-cell capture and tagging of nucleic acids

• Must be compatible with Chromium Controller systems for GEM generation and downstream library preparation workflows

• Must enable construction of sequencing-ready single-cell libraries with cell-specific barcodes and unique molecular identifiers (UMIs)

• Must support high-efficiency barcoding chemistry to capture transcript or target molecule information from individual cells

• Must be compatible with downstream Illumina sequencing platforms and standard sequencing read structures (cell barcode, UMI, and insert sequence)

• Must include reagents sufficient for four (4) independent reaction setups per kit configuration

• Must support integration with 10x Genomics single-cell library preparation workflows and associated analysis pipelines

• Must maintain reagent stability and performance across all included reactions to ensure consistent GEM formation and library complexity

• Must be suitable for use in single-cell gene expression or other compatible single-cell assay workflows depending on downstream application configuration

Vendor must be able to provide these specifications for GEM-X Flex Gene Expression Chip Kit, 4 chips

• Must be designed for use with the 10x Genomics GEM-X single-cell gene expression workflow, enabling high-throughput single-cell partitioning and barcoding

• Must be compatible with Chromium X and Chromium iX instruments for GEM generation using microfluidic chip-based loading

• Must support processing of multiple samples across four (4) individual chips per kit configuration

• Must enable single-cell resolution capture of gene expression profiles through gel bead-in-emulsion (GEM) technology

• Must facilitate incorporation of cell barcodes and unique molecular identifiers (UMIs) during reverse transcription within GEMs

• Must support flexible sample input types, including single-cell suspensions or nuclei as specified by the GEM-X Flex Gene Expression workflow

• Must be compatible with downstream construction of Illumina sequencing-ready 3’ gene expression libraries

• Must enable scalable experimental design for multiplexed or multi-sample single-cell gene expression studies

• Must maintain consistent microfluidic performance across all four chips to ensure reproducibility of GEM formation and cell capture efficiency

• Must integrate with 10x Genomics software pipelines for demultiplexing, alignment, and single-cell gene expression analysis

Vendor must be able to provide these specifications for Dual Index Kit TS Set A, 96 rxn

• Must provide dual-indexing primers for Illumina-compatible sequencing library preparation workflows

• Must support addition of sample indices (i5 and i7) for multiplexing of sequencing libraries across multiple samples

• Must be compatible with 10x Genomics single-cell and other NGS library construction workflows requiring indexed amplification

• Must enable high-fidelity PCR amplification while incorporating unique dual indices to minimize index hopping and sample misassignment

• Must provide sufficient reagents for 96 indexing reactions per kit configuration

• Must support use in high-throughput sequencing workflows requiring large-scale sample multiplexing

• Must be compatible with Illumina sequencing platforms and standard read structures used in single-cell and bulk NGS applications

• Must maintain balanced base composition across index sets to support optimal sequencing quality and cluster recognition

• Must integrate with downstream bioinformatics pipelines for demultiplexing and sample-level separation of sequencing data

• Must be suitable for use in conjunction with 10x Genomics library preparation kits requiring TS Set A indexing chemistry

Vendor must be able to provide these specifications Chromium GEM-X Single Cell 3' Chip Kit v4, 4 chips

• Must be designed for use with the 10x Genomics Chromium GEM-X Single Cell 3’ gene expression workflow to enable high-throughput single-cell partitioning and barcoding

• Must support microfluidic generation of Gel Beads-in-Emulsion (GEMs) for single-cell capture and individual molecular indexing

• Must be compatible with Chromium X and Chromium iX instruments for GEM generation and chip-based loading

• Must support processing of four (4) chips per kit configuration for scalable experimental design and increased sample throughput

• Must enable single-cell 3’ gene expression profiling with incorporation of cell barcodes and unique molecular identifiers (UMIs) during reverse transcription

• Must facilitate capture of mRNA transcripts from individual cells for downstream construction of Illumina-compatible sequencing libraries

• Must support high-efficiency cell partitioning and minimize doublet rates through optimized microfluidic design

• Must be compatible with downstream 10x Genomics library preparation kits and sequencing workflows for single-cell gene expression analysis

• Must enable integration with standard 10x Genomics analysis pipelines for alignment, demultiplexing, and gene expression quantification

• Must maintain consistent chip-to-chip performance to ensure reproducibility across multiple runs and samples

Vendor must be able to provide these specifications for Dual Index Kit TT Set A, 96 rxn

Must provide Illumina-compatible dual indexing reagents for addition of i5 and i7 sample indices during library amplification

• Must support multiplexing of up to 96 sequencing libraries per kit configuration

• Must be compatible with 10x Genomics single-cell gene expression and other NGS library preparation workflows requiring indexed PCR

• Must enable incorporation of unique dual indices to reduce index hopping and improve sample demultiplexing accuracy

• Must support high-fidelity PCR amplification while maintaining uniform index representation across reactions

• Must be compatible with Illumina sequencing platforms and standard read structures used in single-cell and bulk sequencing applications

• Must provide balanced index sets designed to optimize sequencing quality, cluster detection, and base diversity during index reads

• Must integrate with downstream bioinformatics pipelines for sample demultiplexing and library separation

• Must be suitable for use in high-throughput sequencing workflows requiring scalable sample indexing

• Must be compatible with 10x Genomics GEM-X and Chromium library construction workflows requiring TS Set TT Set A indexing chemistry

Vendor must be able to provide these specifications for GEM-X Universal 3' Gene Expression v4, 48 samples

• Must enable high-throughput single-cell 3’ gene expression profiling across up to 48 multiplexed samples per kit configuration

• Must support compatibility with 10x Genomics GEM-X workflow for single-cell partitioning and barcoding using Gel Beads-in-Emulsion (GEM) technology

• Must allow processing of diverse sample types including single-cell suspensions and nuclei, depending on validated protocol requirements

• Must incorporate cell-specific barcodes and unique molecular identifiers (UMIs) during reverse transcription for accurate single-cell transcript quantification

• Must support sample multiplexing strategies to reduce batch effects and increase experimental scalability across multiple conditions or donors

• Must be compatible with Chromium X and Chromium iX instruments for GEM generation and chip-based loading workflows

• Must generate Illumina-compatible 3’ gene expression libraries suitable for high-throughput sequencing

• Must support standardized read architecture including cell barcode, UMI, sample index, and transcript insert for downstream analysis

• Must be compatible with 10x Genomics software pipelines for demultiplexing, alignment, and gene expression quantification

• Must enable scalable study design for large cohort or multi-condition single-cell transcriptomics experiments while maintaining data consistency across samples