Required Information by Service

The information below is required to place an online order.

If you exit the process partway through, you will need to restart the process.

Dear SeqCenter Customer,

Thank you for choosing us as a sequencing partner for your research. We are grateful for your continued trust and are excited to share an upcoming change to best support our growing community.

 On Tuesday, September 8th, we are transitioning to a new ordering system. Our goal is to expand our current offerings while making checkout smoother for everyone. As with any change of this scale, you may run into an unexpected issue, and we appreciate your patience while we work to resolve them quickly. If you need help troubleshooting, we are here for you at 878-227-4915 or info@seqcenter.com.

This system retains our self-service quoting and checkout, with no need to go through a sales representative. To make that possible, our more complex line items will require some additional information. If you’re placing an order for a dedicated flow cell or analyses, we recommend reviewing our ordering help page linked below to prepare for this transition.

Above all, we remain committed to lowering the barrier to entry for every sequencing project, regardless of volume, complexity, or institution size, and we look forward to continuing our work together.

Required by all services:

  • Sample name
    • Alphanumeric characters and underscores only
    • Examples of valid name: wt_tn1, my_sample2
    • Examples of invalid name: trt.d1.2, wt + pJAN +  Δorf2
  • Concentration
    • Please convert to ng/µL
    • If an extraction was ordered, please enter zero (0).
    • We generally do not recommend diluting your samples.

Sequencing Services

  • Sample name: pool name as it appears on the tube being submitted
  • Concentration: the concentration of the material being submitted. Do not dilute your material. SeqCenter will be diluting the pool as part of the loading process.
  • Loading concentration (pM): This is the loading concentration for your library construct and pool composition. It can affect sequencing quality and output. If you have used a library prep kit, refer to the manufacturer’s recommendations.
  • Fragment length (bp): This is the expected average total fragment length of your pool. SeqCenter will perform a fragment analysis and compare the results against this number as part of QC. Fragment length should have a narrow distribution with a single peak for each pool.
  • Read lengths (bp): This defines the number of cycles the sequencer will allocate to each read. R1 + R2 cannot be greater than the total number of cycles of the kit. For single end reads or indices, enter 0 for reads to skip.
    • R1 = Read 1
    • I1 = Index 1 (i7)
    • I2 = Index 2 (i5)
    • R2 = Read 2
  • PhiX Spike-in
    • If your libraries require PhiX to successfully run or increase quality, enter the percentage that you are requesting.
    • If you do not want PhiX to be added at loading, enter 0.
  • Custom sequencing primers:
    • Certain libraries are not compatible with Illumina’s standard sequencing primers. If your library requires custom sequencing primers, indicate which reads need them using R1, I1, I2, and R2.
    • If being used, the custom primers must be sent to SeqCenter with the pooled libraries.
    • The MiSeq is not able to support custom sequencing primers for I2.
  • Demultiplexing key: If you would like SeqCenter to demultiplex your data, please provide a tabular file (csv, tsv, xlsx) of sample names and full index sequences.
  • Cell Ranger demux: If you will be using Cell Ranger for your analysis, check this box to have the data formatted for later Cell Ranger processing.
  • UMI: If a UMI is present, please detail its length and describe its relative location.

  • Organism name or sample description: For the assembly, please provide taxonomic information. Genus and species are preferred.
  • Expected genome size (Mbp): Enables more accurate assemblies. An estimate is OK. Please convert Gbp to Mbp.

Add-on Lab Services

For all DNA extraction services:

  • Sample Safety Level: Must be BSL1 or BSL2/2+. We cannot accept higher levels.
  • Material Type: Options: Aspirated cell pellet, agar plate, tissue (including plant and insect), blood, stool, environmental sample, swab, lysate, other
  • Material Type, Description: If the type is “other”, please describe the sample and its origin

For HMW DNA extraction services, you will also be asked for:

  • Organism name or sample description: A taxonomic description (such as genus and species) or sample origin
  • Sample history: Please describe how the physical material has been processed or treated before.

  • Sample Safety Level: Must be BSL1 or BSL2/2+. We cannot accept higher levels.
  • Material Type: Options: Aspirated cell pellet, agar plate, tissue (including plant and insect), blood, stool, environmental sample, swab, lysate, other
  • Material Type, Description: If the type is “other”, please describe the sample and its origin
  • Preservation Buffer: Please indicate whether or not the sample is stored in a preservation buffer. Options include:
    • None
    • Zymo DNA/RNA Shield
    • QIAGEN RNAprotect
    • QIAGEN Allprotect
    • Invitrogen RNAlater
    • UTM/VTM

  • Sample Safety Level: Must be BSL1 or BSL2/2+. We cannot accept higher levels.

Bioinformatic Analyses

An annotated reference assembly is required for all RNA analyses packages, to complete mapping and binning. For each reference, please provide one of the following:

  • A file in GenBank format (.gb, .gbk, .gbff). Other file formats are not accepted.
  • The NCBI accession number of the specific to assembly version and annotation type, starting with GCA or GCF.
    • Assembly version can affect nucleotide content and overall structure, while annotation type will affect locus calls and names.
    • If you plan to compare your results to existing datasets or require specific locus tags, ensure that the correct assembly and annotation is used.
    • RefSeq annotations start with GCF while GenBank annotations start with GCA. (GenBank annotation ≠ GenBank file format.)
  • If an assembly is being generated within the same order, please indicate which sample to use.

If more than one reference is being provided, please indicate which samples should use which references.

For intermediate RNA analyses, please define the comparisons to be made, as B vs A (where B is compared against A.) If you have replicates or groupings, please define the groups and list the comparisons by groups. For pathway analysis to be included, the requested reference must be included in the KEGG Pathway Catalog.

A reference assembly is required to perform this analysis. If you would like gene information to be included, the reference must be annotated. For each reference, please provide one of the following:

  • A file in GenBank format (.gb, .gbk, .gbff) for annotated reference or fasta format (.fasta, .fa) file for unannotated references. Other file formats are not accepted.
  • The NCBI accession number of the specific to assembly version and annotation type, if applicable.
    • Assembly version can affect nucleotide content and overall structure, while annotation type will affect locus calls and names.
    • If you plan to compare your results to existing datasets or require specific locus tags, ensure that the correct assembly and annotation is used.
    • RefSeq annotations of full assemblies start with GCF while GenBank annotations start with GCA. (GenBank annotation ≠ GenBank file format.)
  • If an assembly is being generated within the same order, please indicate which sample to use.

If more than one reference is being provided, please indicate which samples should use which references.

An annotated reference assembly is required for all CNV analysis packages, to evaluate locus count. For each reference, please provide one of the following:

  • A file in GenBank format (.gb, .gbk, .gbff). Other file formats are not accepted.
  • The NCBI accession number of the specific to assembly version and annotation type, starting with GCA or GCF.
    • Assembly version can affect nucleotide content and overall structure, while annotation type will affect locus calls and names.
    • If you plan to compare your results to existing datasets or require specific locus tags, ensure that the correct assembly and annotation is used.
    • RefSeq annotations start with GCF while GenBank annotations start with GCA. (GenBank annotation ≠ GenBank file format.)
  • If an assembly is being generated within the same order, please indicate which sample to use.

You must also indicate whether or not polymorphic variations are allowed/expected.

A reference assembly is required to perform this analysis. If you would like gene information to be included, the reference must be annotated. For each reference, please provide one of the following:

  • A file in GenBank format (.gb, .gbk, .gbff) for annotated reference or fasta format (.fasta, .fa) file for unannotated references. Other file formats are not accepted.
  • The NCBI accession number of the specific to assembly version and annotation type, if applicable.
    • Assembly version can affect nucleotide content and overall structure, while annotation type will affect locus calls and names.
    • If you plan to compare your results to existing datasets or require specific locus tags, ensure that the correct assembly and annotation is used.
    • RefSeq annotations of full assemblies start with GCF while GenBank annotations start with GCA. (GenBank annotation ≠ GenBank file format.)
  • If an assembly is being generated within the same order, please indicate which sample to use.

If more than one reference is being provided, please indicate which samples should use which references.

  • Organism name or sample description: Please provide taxonomic information or an NCBI Taxa ID. Genus and species are preferred.

  • Organism name or sample description: For the assembly, please provide taxonomic information. Genus and species are preferred.
  • Expected genome size (Mbp): Enables more accurate assemblies. An estimate is OK. Please convert Gbp to Mbp.

  • Organism name or sample description: Please provide taxonomic information or an NCBI Taxa ID. Genus and species are preferred.

Two references are required. Please submit a fasta of the expected insertion and a reference assembly of the host/strain being evaluated.

A reference assembly is required to perform this analysis. If you would like gene information to be included, the reference must be annotated. For each reference, please provide one of the following:

  • A file in GenBank format (.gb, .gbk, .gbff) for annotated reference or fasta format (.fasta, .fa) file for unannotated references. Other file formats are not accepted.
  • The NCBI accession number of the specific to assembly version and annotation type, if applicable.
    • Assembly version can affect nucleotide content and overall structure, while annotation type will affect locus calls and names.
    • If you plan to compare your results to existing datasets or require specific locus tags, ensure that the correct assembly and annotation is used.
    • RefSeq annotations of full assemblies start with GCF while GenBank annotations start with GCA. (GenBank annotation ≠ GenBank file format.)
  • If an assembly is being generated within the same order, please indicate which sample to use.

If more than one reference is being provided, please indicate which samples should use which references.

  • Cell type options: Somatic or Germline.

Contact:
91 43rd Street, Ste. 250
Pittsburgh, PA 15201
(878) 227-4915

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