Welcome!
The IIDS Genomics and Bioinformatics Resources Core provides researchers from the University of Idaho access to technology, experience, and expertise in molecular biology methods. The core utilizes advanced technologies from companies such as Illumina, PacBio, Oxford Nanopore, Fluidigm, Sage Biosciences, and Advanced Analytical. Applications of these technologies are commonly used in biomedical research, but the interdisciplinary focus of the University of Idaho results in a wide range of fields that can benefit from the core, including agricultural studies, forest management, and animal science. The Genomics Resources core is also available to researchers that are external to the University of Idaho, which expands our collaborative base.
The core offers expertise in the bioinformatics needed to acquire, analyze, and visualize data generated from high throughput technologies used in genomics research. With approximately $1.8 million in specialized genomic equipment, we offer a wide variety of services and capabilities including next-generation sequencing with Illumina technologies, targeted re-sequencing, and high-throughput sample preparation of both DNA and RNA.
The Genomics and Bioinformatics Resources Core implements an innovative approach to Core Facility management: the Interdisciplinary Triangle of Collaboration. The key to success of the Interdisciplinary Triangle of Collaboration is its holistic approach. Communication between all key personnel (Principal Investigator, Bioinformatician, and Molecular Scientist) occurs from at all stages of the experimental process, starting with study planning, design, and data generation through data interpretation, visualization, and manuscript preparation. The Core provides the specialized technical expertise, extensive experience, and equipment as a part of a productive relationship with the researchers. This uncommon and innovative approach to core facility management allows the IIDS Genomics and Bioinformatics Resources Core to provide customized technical expertise that most single investigators would not have access to.
The IIDS Genomics and Bioinformatics Resources Core specializes in:
Due to initial funding methods, all papers, publications and press releases resulting from the use of the Genomics and Bioinformatics Resources Core facility should abide by the Fair Access to Science and Technology and NIH Open Access policies; they should at least include the following acknowledgement:
“Data collection and analyses performed by the University of Idaho IIDS Genomics and Bioinformatics Resource Core Facility, RRID:SCR_026416”
Additionally, if services you received from the GBRC included significant intellectual contributions (including consulting, experimental design, or troubleshooting/developing laboratory or bioinformatic methods), authorship or acknowledgement for the appropriate staff member(s) is required in associated publications. For further clarification of authorship questions, please see the ABRF Guidelines.
Sarah Hendricks, Bioinformatic Data Scientiest
shendricks@uidaho.edu
208-885-6107
Dan New, Lab Manager
dnew@uidaho.edu
208-885-7023
Austin Kobernuss, Lab Coordinator
akobernuss@uidaho.edu
208-885-7023
|
Contact the Genomics and Bioinformatics Resources Core before shipping: 208-885-7023 |
Click here for full size image
| Name | Role | Phone | Location | |
|---|---|---|---|---|
| Dan New |
Lab Manager
|
208-885-7023
|
dnew@uidaho.edu
|
IRIC 210
|
| Sarah Hendricks |
Bioinformatic Data Scientist
|
208-885-6107
|
shendricks@uidaho.edu
|
IRIC 224
|
| Austin Lilly |
Lab Fairy
|
208-885-7023
|
alilly@uidaho.edu
|
IRIC 210
|
| Projects, Services, and Quote Requests |
| ► FA, qualification and quantification, Bioanalyzer equivalent (but better) (6) | |||
| Name | Description | Price | |
|---|---|---|---|
| Fragment Analyzer (AATI), NGS library qualification |
|
Internal
$36.00
each
External $44.00 each Corporate $60.00 each |
|
| Fragment Analyzer (AATI), NGS library qualification (ENTIRE ROW, 11samples) |
|
Internal
$118.00
each
External $142.00 each Corporate $197.00 each |
|
| Fragment Analyzer (AATI) High Sensitivity gDNA, 50k |
|
Internal
$36.00
each
External $44.00 each Corporate $60.00 each |
|
| Fragment Analyzer (AATI) High Sensitivity gDNA, 50k (ENTIRE ROW, 11 samples) |
|
Internal
$118.00
each
External $142.00 each Corporate $197.00 each |
|
| Fragment Analyzer (AATI) Total RNA |
|
Internal
$36.00
each
External $44.00 each Corporate $60.00 each |
|
| Fragment Analyzer (AATI) Total RNA (ENTIRE ROW, 11samples) |
|
Internal
$118.00
each
External $142.00 each Corporate $197.00 each |
|
| ► Sample Quantification and Qualification (10) | |||
| Name | Description | Price | |
| Library Preparation and Quantification (qPCR) |
|
Internal
$39.00
each
External $47.00 each Corporate $65.00 each |
|
| Qubit High Sensitivity DNA Quantification |
Quantified double-stranded DNA, 10pg/uL to 100ng/uL
Prices are per sample |
Internal
$3.00
each
External $4.00 each Corporate $5.00 each |
|
| Qubit Broad Range RNA Quantification |
quantified RNA from 100 pg⁄µl to 1000 ng⁄µl, destructive testing Prices are per sample |
Internal
$3.00
each
External $4.00 each Corporate $5.00 each |
|
| Qubit Broad Range DNA Quantification |
quantified double-stranded nucleic acid 100 pg/µL to 1000 ng/µL, destructive testing
Prices are per sample |
Internal
$3.00
each
External $4.00 each Corporate $5.00 each |
|
| NanoDrop |
Please let us know which buffer you used to elute your sample. |
Internal
$4.00
each
External $4.80 each Corporate $6.65 each |
|
| Pooling Charge |
A one-time charge for technician time involved in pooling amplicons. |
Internal
$21.00
each
External $26.00 each Corporate $35.00 each |
|
| Plate - DNA Fluorometry |
91 samples per plate - leave wells H8-H12 empty. |
Internal
$80.00
each
External $96.00 each Corporate $134.00 each |
|
| Plate - RNA Fluorometry |
91 samples per plate - leave wells H8-H12 empty. |
Internal
$80.00
each
External $96.00 each Corporate $134.00 each |
|
| Turner DNA Fluorometry |
Prices are per sample |
Internal
$7.00
Sample
External $9.00 Sample Corporate $12.00 Sample |
|
| Turner RNA Fluorometry |
Prices are per sample |
Internal
$7.00
each
External $9.00 each Corporate $12.00 each |
|
| ► DNA Library (20) | |||
| Name | Description | Price | |
| Affordable Illumina DNA Shotgun-Libraries, 1 or more |
Manual production of a minimum of 8 shotgun-libraries including everything but sequencing @ UI. |
Internal
$363.00
each
External $436.00 each Corporate $604.00 each |
|
| Affordable Illumina DNA Shotgun-Libraries, 8 or more |
Manual production of a minimum of 8 shotgun-libraries including everything but sequencing @ UI. |
Internal
$96.25
each
External $115.50 each Corporate $160.13 each |
|
| Affordable Illumina DNA Shotgun-Libraries, 16 or more libraries |
Manual production of a minimum of 16 shotgun-libraries including everything but sequencing @ UI.
|
Internal
$74.06
each
External $88.88 each Corporate $123.19 each |
|
| Affordable Illumina DNA Shotgun-Libraries, 48 or more libraries |
Manual production of a minimum of 48 shotgun-libraries including everything but sequencing @ UI. |
Internal
$54.94
each
External $65.94 each Corporate $91.38 each |
|
| Illumina Shotgun Library, Covaris and Ligate, 1 library |
Input: non QC'ed DNA that is ready for QC <= 1,000ng to ligation Output: Pooled, qubited, FA'ed, and test-PCR'ed library ready to ship |
Internal
$682.82
each
External $820.00 each Corporate $1,136.00 each |
|
| Illumina Shotgun Library, Covaris and Ligate, 8 libraries |
Input: non QC'ed DNA that is ready for QC <= 1,000ng to ligation Output: Pooled, qubited, FA'ed, and test-PCR'ed library ready to ship |
Internal
$1,150.56
each
External $1,381.00 each Corporate $1,914.00 each |
|
| Illumina Shotgun Library, Covaris and Ligate, 16 libraries |
Input: non QC'ed DNA that is ready for QC <= 1,000ng to ligation Output: Pooled, qubited, FA'ed, and test-PCR'ed library ready to ship |
Internal
$1,779.13
each
External $2,135.00 each Corporate $2,959.00 each |
|
| Illumina Shotgun Library, Covaris and Ligate, 48 libraries |
Input: non QC'ed DNA that is ready for QC <= 1,000ng to ligation Output: Pooled, qubited, FA'ed, and test-PCR'ed library ready to ship |
Internal
$3,974.54
each
External $4,770.00 each Corporate $6,610.00 each |
|
| Illumina Shotgun DNA Library, PCR-based |
Automated Apollo Illumina DNA library preparation |
Internal
$211.00
each
External $257.00 each Corporate $356.00 each |
|
| Illumina Shotgun DNA Library, PCR-Free |
Manual production of PCR-free shotgun-libraries for Illumina including everything but sequencing @ UI. |
Internal
$203.00
each
External $244.00 each Corporate $338.00 each |
|
| Illumina CHiP-seq Library peparation |
Automated Apollo CHiP-seq library prep, custom insert size |
Internal
$237.00
each
External $285.00 each Corporate $395.00 each |
|
| NREL/Chou PCR-free libraries (DAP-Seq), 1library |
Input: non QC’ed DNA that is ready for QC Output: pooled, qubited, FA’ed, and test-PCRed library ready to ship |
Internal
$856.00
each
External $1,028.00 each Corporate $1,424.00 each |
|
| NREL/Chou PCR-free libraries (DAP-Seq), 2 libraries |
Input: non QC’ed DNA that is ready for QC Output: pooled, qubited, FA’ed, and test-PCRed library ready to ship |
Internal
$954.00
each
External $1,145.00 each Corporate $1,587.00 each |
|
| NREL/Chou PCR-free libraries (DAP-Seq), 3 libraries |
Input: non QC’ed DNA that is ready for QC Output: pooled, qubited, FA’ed, and test-PCRed library ready to ship |
Internal
$1,053.00
each
External $1,264.00 each Corporate $1,752.00 each |
|
| NREL/Chou PCR-free libraries (DAP-Seq), 4 libraries |
Input: non QC’ed DNA that is ready for QC Output: pooled, qubited, FA’ed, and test-PCRed library ready to ship |
Internal
$1,151.00
each
External $1,382.00 each Corporate $1,915.00 each |
|
| NREL/Chou PCR-free libraries (DAP-Seq), 5 libraries |
Input: non QC’ed DNA that is ready for QC Output: pooled, qubited, FA’ed, and test-PCRed library ready to ship |
Internal
$1,249.00
each
External $1,499.00 each Corporate $2,078.00 each |
|
| NREL/Chou PCR-free libraries (DAP-Seq), 6 libraries |
Input: non QC’ed DNA that is ready for QC Output: pooled, qubited, FA’ed, and test-PCRed library ready to ship |
Internal
$1,347.00
each
External $1,617.00 each Corporate $2,241.00 each |
|
| Pooling and QC of 4 or more qPCRed libraries |
A one-time charge for normalzing pPCRed libraries, then FA, qPCR, and normalizing the pool.
|
Internal
$174.00
each
External $209.00 each Corporate $290.00 each |
|
| Library Amplification (KAPA) |
Amplified library using KAPA kits; user must specify number of cycles |
Internal
$22.00
each
External $27.00 each Corporate $37.00 each |
|
| Illumina Mate-Pair Library Prep - Nextera |
Nextera's mate-pair library prep, requires 1ug of unfragmented high-quality genomic DNA. Output is a single mate-pair library ready for Illumina sequencing. Price includes QC of sample before and after library generation. |
Internal
$491.00
each
External $590.00 each Corporate $817.00 each |
|
| ► Fluidigm (6) | |||
| Name | Description | Price | |
| Fluidigm 192.24 (includes post-chip prep) |
192 samples |
Internal
$3,144.00
each
External $4,479.00 each Corporate $6,207.00 each |
|
| Fluidigm 192.24 |
192 samples |
Internal
$2,607.00
each
External $3,129.00 each Corporate $4,336.00 each |
|
| Fluidigm 48x48 well Singleplex (includes post-chip prep) |
48 samples |
Internal
$1,443.00
each
External $2,028.00 each Corporate $2,811.00 each |
|
| Fluidigm 48x48 well Singleplex |
48 samples, singleplex (48 primer pairs) |
Internal
$1,122.00
each
External $1,347.00 each Corporate $1,866.00 each |
|
| Fluidigm 48x48 well Multiplex |
48 samples, more than 48 primer pairs |
Internal
$1,336.00
each
External $1,604.00 each Corporate $2,222.00 each |
|
| Fluidigm sample pooling |
Required if doing fluidigm |
Internal
$350.00
each
External $420.00 each Corporate $583.00 each |
|
| ► Genotyping (library-prep for Illumina Sequencing) (4) | |||
| Name | Description | Price | |
| 24x high density mouse genotyping panel (~1700 SNPs) |
Input: quantifed and qualified DNA |
Internal
$1,005.00
each
External $1,206.00 each Corporate $1,672.00 each |
|
| 48x high density mouse genotyping panel (~1700 SNPs) |
Input: quantified and qualified DNA |
Internal
$1,449.00
each
External $1,739.00 each Corporate $2,410.00 each |
|
| 72x high density mouse genotyping panel (~1700 SNPs) |
Input: quantified and qualified DNA |
Internal
$1,914.00
each
External $2,297.00 each Corporate $3,183.00 each |
|
| 96x high density mouse genotyping panel (~1700 SNPs) |
Input: quantified and qualified DNA |
Internal
$2,380.00
each
External $2,856.00 each Corporate $3,958.00 each |
|
| ► Aviti24 (Element Biosciences) - INTRO (1) | |||
| Name | Description | Price | |
| Aviti24 (Element Biosciences) - INTRO |
The Aviti24 by Element Biosciences is our newest DNA sequencer, but it does more than sequence DNA. It’s a dual-use machine. Its DNA sequencing capability allows access to unprecedented sequencing depth/throughput/power on-campus, but, its evolving Spatial Multomics capability will benefit on-campus clients in ways that any other just-sequencer could not. The instrument was purchased with five year of service contract, which drives down sequencing rates.
Sequencing
Sequencing Testing
Morphology: Visualize nucleus, membrane, actin, ER, Golgi, and mitochondria using “cell-paint” with realtime segmentation and morphology feature extraction via onboard primary analysis RNA Detection: Profile up to 350 transcripts (via probes) at sub-cellular resolution for thousands of transcripts/cell Protein Detection: Map 50 cell proteins at subcellular resolution with onboard detection via antibodies that are amplified and detected by sequencing
Teton Atlas Direct in Situ Sequencing (“DISS”) Low Output: Sequence up to 100bp of RNA via probes, 3plex cell-paint, and up to 88 protein targets High Output: Sequence up to 100bp of RNA targeting polyA ends in batches to fight optical crowding EVOLVING |
Inquire | |
| ► Aviti24 (Element BioScineces) - FAQ (1) | |||
| Name | Description | Price | |
| Aviti24 (Element BioScineces) - FAQ |
Q: Can you provide some details about the Aviti24:
A: Element Biosciences’ Aviti24 sequences virtually all Illumina Libraries (linear) and Element’s Libraries (circular). It generally produces reads of higher quality than the current Illumina Sequencers (NovaSeq6000/X and NextSeq2000) and is frequently cheaper for the same length/number formats, especially when compared to the NextSeq series. It's better in nearly every conceivable way than our MiSeq also. But that's just sequencing. Mindbogglingly, the Aviti24 also has spatial multi-omics in the same physical machine. It's literally paradigm bending/breaking when it comes to a short-read DNA/RNA sequencer...DNA sequencing is literally only half what it can do. The Aviti24's DNA sequencing ability is the "old hat" need we bought it for (with more sequencing horsepower) and the spatial side is the "evolving capability" we wagered would benefit on-campus folks in ways that aren't perfectly clear at the moment, but exist. Spatial is currently evolving. We bought the decade+ MiSeq for similar "developing" reasons and it really paid off.
Q: How does the sequencing work, compared to Illumina?
A: To generate polonies (Element talk for "clusters") and thereby seed--->populate the flowcell before sequeuncing, Element's libraries are circular and use rolling-circle-amplification (RCA) instead of Illumina's bridge-PCR of linear libraries. While Element initially had an on-the-bench circularization method to enable sequencing Illumina’s (linear) libraries on Element Sequencers, Element’s “FreeStyle” line of sequencing kits provide on-board circulation. Once circularized they can RCA and then sequence. That means with FreeStyle sequencing kits you simply load the linear Illumina library onto an Aviti-series sequencer, it circularizes on-board, undergoes RCA, and then sequencing magic happens. With Element’s sequencing kits, lower amounts of "chemistry" are used and optical duplicate issues aren't really a thing as the flowcells are randomly seeded, not patterned like most Illumina platforms. This results in higher SNRs, and consequently, the sequencer is able to produce higher quality data, and at a lower cost, generally speaking.
Q: Which types of existing libraries are compatible with the Aviti24?
A: Generally speaking, if you sequenced a library on the MiSeq or another Illumina platform, that library is almost certainly compatible with the Aviti24. A handful of certain, somewhat arcane to us, libraries like Swift’s Normalase products and libraries that are “bottom stranded" are not directly compatible with Aviti/24/LT. Those need to be ported to Aviti-compatible libraries on the bench. An "official" compatibility list would be:
Q: Which types of libraries require "end polish" in order to sequence on Aviti24?
A:
Q: I think we can do the Aviti24 instead of MiSeq. I haven’t kept up with the new sequencing technology. Is it still paired end? 200 bp reads?
A: Yes. The Aviti24, like our trusty old MiSeq, offers 2x300 (600cycle kit) as one of its read-formats. 2x300 is its current longest format. However, the Aviti24 starts around Q40-43, so much higher quality reads with Element, more of them per dollar, and few dollars per kit. 2x300 run-formats come in ~100million and ~300million read variants, other available read-lengths are 2x75 and 2x150, and with the horsepower of up to 1billion reads. Additionally, Read1 and Read2 length can be modified to suit the client's needs. For example a 600 cycle kit normally run as 2x300 could also be run as R1=400bp & R2=200bp.
Q: What is the library prep process for this? Same 2-step [amplicon] procedure? I’m glad I asked you before we made libraries the old way!
A: If you are using our 2stepPCR PCR2 primers/barcodes, those seem +/- unaffected as we order those from IDT as “Ultramers” which are advertised to be “75% full-length,” and worked well in testing. (The issue here would be truncations, if it showed up) Generally speaking, ordering your final-PCR primers as HPLC is recommended for libraries sequenced on Element’s Aviti Series, though, again, as mentioned above, the IDT Ultramers we sell for PCR2 (amplicon libraries) worked reasonably well during testing.
Q: What's this I hear about it being important that the last PCR reaction on a library use full-length primers?
A: It’s important that the “final PCR” primers be full-length as truncations at the 5’ end of each primer exceeding 1bp each per end significantly decrease circularization efficiency. This means, with >=1 truncation per end, and with each additional truncation on the ends of a libary, few and then progressively fewer reads, respectively, given the same amount of library loaded on the sequencer. So far the "standard" primers and master-mix the GBRC uses to amplify NEBNext, Lexogen QuantSeq, and KAPA Hyper libraries have produced roughly the expected amountg of reads. A new UofI client who had their Earch Microbiome Project (EMP) 1step PCR amplicon libraries sequenced on another Aviti, before ours came online, inidicated that their ~"libraries sequenced fine" on that other Aviti platform, but we plan to verify this in-house as soon as the opportunity presents itself. This client's librareis were created using their 1step PCR system which used "standard desalting primers" which we're told don't circularize well, so result in lower cluster density. At this point, it remains unclear how important that really is, so how careful we have to be is not sufficiently supported by data to know, and as this text IS red, we're still making observations and remain cautious.
Q: This is incredibly helpful—thanks so much for the detailed explanation. It’s great to hear that you still envision being able to “split” runs under some scenarios. I have a 16S and ITS [library] library prepared with the same barcodes (but different primers) that I’d be happy to send your way as a test case on the Aviti. We haven’t performed a post–second PCR cleanup (as is typical for our workflow), and I don’t have a clear sense of the size distribution for the ITS pool. I assume your team would plan to handle standard fragment analysis and any necessary cleanup on that end, but please let me know if you’d prefer us to do anything prior to shipping.
A: Yes, we would qubit ---> FA ---> clean ---> FA ---> maybe qPCR the pools. Same QC as Illumina, as your amplicon libraries are still Illumina (linear) libraries after all. Because of the number of reads on the Aviti24, for a 2x300 medium kit (~100million reads), we would probably clean at least your ITS less stringently as we did for MiSeq 2x300 (~15million reads). This less stringent cleaning would also be safer for ITS as I've suspected we were, for MiSeq, +/- necessarilly removing the very short inserts for years to clean away the parasitic PCR-products at the same time.
Q: If you’re ready to accept another set of [amplicon] libraries, we’d be happy to send these along for a run. It seems like this could be a useful test for some of the demultiplexing and locus-splitting considerations you mentioned as well?
A: Actually, in order to deliver your Aviti24 ITS comparison data, we added 1% RAD libraries, ~40% shotgun library (targeted 15%), and about 2% phiX. The shotgun libraries were demultiplexed with Element’s bases2fastq, and as is SOP, the amplicon libraries were the further demultiplexed to barcode and locus with dbcAmplicons preprocess. As such, we’re not worried about running ITS and 16S together from a demultiplexing perspective. We’ve already done that experiment and found the demultiplexing process is the same as with Illumina, the minor difference being front-end; we use Element’s base2fastq vs. Illumina’s bcl2fast.
Q: Are there any insert-length considerations I should make when sequencing on the Aviti24?
A: Yes, like Illumina, there certainly are insert-length considerations. Though we should catch this during sample-intake (at least qubit and Fragment Analzyer), there are can be some "sequencing recipe" modifications that we need to make for the averge insert size, and also some "concatamer read-through" considerations we need to make. PacBio also had insert-length considerastions, despite being long-read, though strangely, both PacBio and Element use RCA... Recipes:
Generally speaking, so long as your libraries don't have wildly variable/wide insert range, super short insert/long inserts, and you aren't sequencing uncommonly long R1s for that library-type ((e.g. 300bp R1 in a 260bp library), it is probably sequenceable with the "standard recipe" and without worrying about the "R2 Rescue Recipe." So far we've only used the R2 Rescue recipe with an ITS amplicon library whose targets are not full-length ITS.
Q: Is the Aviti24 capable of doing the 10X Genomics [RNA] library-prep onboard, and then sequencing it? A: No. The Aviti24 sequencer does not make 10X RNA libraries. The Aviti24 can however sequence the libraries once they are made on the 10X ~Chromium system. One of the reasons we decided to purchase the Avit24 was that many cores prefer using it to sequence 10X Libraries. It seems very "right-sized" for many single-cell projects, it turns out.
Q: Does the GBRC currently offer nuclei isolation as a service? A: No, the GBRC does not currently offer nuclei isolation as a service.
Q: We would be curious to see how some of our mock community extracts would come out. This wouldn't be many samples at all (~6 samples off the top of my head) so definitely not close to a full run. Is there a way these samples could get snuck onto a run you are planning? Do you have another suggestion for this?
A: WRT "not enough for a full run," it depends on how many samples there are, what their insert lengths are, if they require custom sequencing primers (CSPs), whose run you're riding shotgun on (payer needs to agree), what the barcodes/indices are, run-format, and timing. There are two physical lanes on the Aviti24 (but not the 2x300 kits; they only use one lane), so, one option, if the barcode thing is a problem you would split a run 50/50 with someone, but then all the other above variables (and probably ones I forgot) still apply. Each client in their own lane would probably mean paying 50%-60% (added work for splitting) of the sequence service fee. "Maybe;" we need more info. If there are no compatibility issues, we can add to another (informed/warned) client's run for a small fee. Case by case... - added 2026.04.02
|
Inquire | |
| ► Aviti24 (Element Biosciences) - SERVICE (7) | |||
| Name | Description | Price | |
| Linear/Illumina, 150cycles, Low Cloudbreak, 2x75, FS |
Input: Linear/Illumina library, ready to sequence |
Internal
$1,030.71
each
External $1,237.00 each Corporate $2,023.00 each |
|
| Linear/Illumina, 150cycles, Medium Cloudbreak, 2x75, FS |
Input: Linear/Illumina library, ready to sequence |
Internal
$1,262.84
each
External $1,516.00 each Corporate $2,478.00 each |
|
| Linear/Illumina, 150cycles, High Cloudbreak, 2x75, FS |
Input: Linear/Illumina library, ready to sequence |
Internal
$1,494.96
each
External $1,794.00 each Corporate $2,934.00 each |
|
| Linear/Illumina, 300cycles, Low Cloudbreak, 2x150, FS |
Input: Linear/Illumina library, ready to sequence |
Internal
$1,262.84
each
External $1,516.00 each Corporate $2,478.00 each |
|
| Linear/Illumina, 300cycles, Medium Cloudbreak, 2x150, FS |
Input: Linear/Illumina library, ready to sequence |
Internal
$1,494.96
each
External $1,794.00 each Corporate $2,934.00 each |
|
| Linear/Illumina, 300cycles, High Cloudbreak, 2x150, FS |
Input: Linear/Illumina library, ready to sequence |
Internal
$2,191.32
each
External $2,630.00 each Corporate $4,300.00 each |
|
| Linear/Illumina, 600cycles, Medium Cloudbreak, 2x300, FS |
Input: Linear/Illumina library, ready to sequence |
Internal
$1,727.08
each
External $2,073.00 each Corporate $3,389.00 each |
|
| ► Illumina (9) | |||
| Name | Description | Price | |
| MiSeq Sequencing v3 (600 cycles) |
MiSeq Sequencing Full Run (600 cycles ~20 Million Reads) |
Internal
$3,282.00
each
External $3,939.00 each Corporate $6,440.00 each |
|
| MiSeq Sequencing v3 (150 cycles) |
MiSeq Sequencing Full Run (150 cycles ~20 Million Reads) |
Internal
$2,192.00
each
External $2,631.00 each Corporate $4,301.00 each |
|
| MiSeq Sequencing v2 (500 cycles) |
|
Internal
$2,662.00
each
External $3,195.00 each Corporate $5,223.00 each |
|
| MiSeq Sequencing v2 (300 cycles) |
|
Internal
$2,435.00
each
External $2,922.00 each Corporate $4,778.00 each |
|
| MiSeq Sequencing v2 (50 cycles) |
|
Internal
$2,034.00
each
External $2,441.00 each Corporate $3,991.00 each |
|
| MiSeq Sequencing v2 (Micro 300) |
|
Internal
$1,375.00
each
External $1,650.00 each Corporate $2,698.00 each |
|
| MiSeq Sequencing v2 (Nano 500 cycles) |
|
Internal
$1,218.00
each
External $1,462.00 each Corporate $2,390.00 each |
|
| MiSeq Sequencing v2 (Nano 300 cycles) |
|
Internal
$1,116.00
each
External $1,340.00 each Corporate $2,190.00 each |
|
| Protocol Development (Troubleshooting and/or Sequencing) |
This project template is for researchers who are developing protocols and would like to test them. Troubleshooting protocols can be expensive, so the GRC is offering a customized development template that will take advantage of the staff's extensive experience to provide guidance for the researcher.
The project template includes experimental design consultation, QA/QC for submitted samples, sequencing, and bioinformatics analysis to determine the success of the project. |
Internal
$734.00
each
External $880.00 each Corporate $1,056.00 each |
|
| ► Illumina, RNA Library (20) | |||
| Name | Description | Price | |
| 3' RNA Library, Lexogen, 1library (EACH) |
Stranded RNA library made from polyA RNA only |
Internal
$815.00
each
External $978.00 each Corporate $1,356.00 each |
|
| 3' RNA Library, Lexogen, 2libraries (EACH) |
Stranded RNA library made from polyA RNA only |
Internal
$436.00
each
External $523.50 each Corporate $725.40 each |
|
| 3' RNA Library, Lexogen, 3libraries (EACH) |
Stranded RNA library made from polyA RNA only |
Internal
$310.00
each
External $372.00 each Corporate $515.67 each |
|
| 3' RNA Library, Lexogen, 4libraries (EACH) |
Stranded RNA library made from polyA RNA only |
Internal
$247.00
each
External $296.50 each Corporate $411.00 each |
|
| 3' RNA Library, Lexogen, 5libraries (EACH) |
Stranded RNA library made from polyA RNA only |
Internal
$209.20
each
External $251.20 each Corporate $348.00 each |
|
| 3' RNA Library, Lexogen, 6libraries (EACH) |
Stranded RNA library made from polyA RNA only |
Internal
$183.83
each
External $220.67 each Corporate $305.83 each |
|
| 3' RNA Library, Lexogen, 7libraries (EACH) |
Stranded RNA library made from polyA RNA only |
Internal
$165.86
each
External $199.14 each Corporate $275.86 each |
|
| 3' RNA Library, Lexogen, 8libraries (EACH) |
Stranded RNA library made from polyA RNA only |
Internal
$152.38
each
External $182.88 each Corporate $253.50 each |
|
| 3' RNA library, Lexogen, 9-17 libraries (EACH) |
Stranded RNA library made from polyA RNA only |
Internal
$146.33
each
External $175.67 each Corporate $243.44 each |
|
| 3' RNA library, Lexogen, 18-35 libraries (EACH) |
Stranded RNA library made from polyA RNA only |
Internal
$104.22
each
External $125.11 each Corporate $173.33 each |
|
| 3' RNA library, Lexogen, 36-47 libraries (EACH) |
Stranded RNA library made from polyA RNA only |
Internal
$82.11
each
External $98.56 each Corporate $136.56 each |
|
| 3' RNA library, Lexogen, 48+ libraries (EACH) |
Stranded RNA library made from polyA RNA only |
Internal
$77.67
each
External $93.20 each Corporate $129.17 each |
|
| Illumina stranded RNA library preparation |
Automated Apollo Illumina stranded RNA library preparation, 1 insert size |
Internal
$322.00
each
External $387.00 each Corporate $536.00 each |
|
| Ribo-Zero ribosomal RNA depletion |
Results in ribo-depleted RNA for stranded workflow or ds-cDNA |
Internal
$157.00
each
External $189.00 each Corporate $262.00 each |
|
| Ribominus ribosomal RNA depletion |
Results in ribo-depleted RNA for stranded workflow or ds-cDNA |
Internal
$139.00
each
External $167.00 each Corporate $232.00 each |
|
| Stranded Illumina RNA library |
Stranded RNA library made by hand from RNA of interest. |
Internal
$236.00
each
External $284.00 each Corporate $393.00 each |
|
| Apollo poly-A mRNA selection |
Automated selection of mRNA using poly-A |
Internal
$63.00
each
External $75.60 each Corporate $104.77 each |
|
| Illumina smRNA library prep |
Automated Apollo small RNA library preparation |
Internal
$342.00
each
External $411.00 each Corporate $569.00 each |
|
| DNAse treatment of RNA |
removes DNA from RNA samples |
Internal
$22.00
each
External $27.00 each Corporate $37.00 each |
|
| Manual ds-cDNA production |
ds-cDNA ready for Illumina DNA library workflow |
Internal
$146.00
each
External $176.00 each Corporate $243.00 each |
|
| ► Oxford NanoPore Technologies (ONT) (2) | |||
| Name | Description | Price | |
| ONT Ligation Barcoded Library (1-6 samples) - CUSTOM ESTIMATE ON REQUEST |
Input: 1000ng HMW DNA for 1 - 6 samples |
||
| ONT Rapid Barcoded Library (1-6 samples) - CUSTOM ESTIMATE ON REQUEST |
Input: 400ng HMW DNA for 1 - 6 samples |
||
| ► Size Selection (5) | |||
| Name | Description | Price | |
| Bead-Based Size Selection |
Size selection using beads |
Internal
$17.00
each
External $21.00 each Corporate $29.00 each |
|
| Gel-cut Size selection |
Internal
$153.00
each
External $184.00 each Corporate $255.00 each |
||
| Blue Pippin size selection 250bp - 1.5kb |
Size select samples using the Blue Pippin 1.5% agarose cassette, between 250 bp and 1.5 kb. Smaller size ranges will have lower yields.
Cost is per sample. A normal cassette cartridge contains 5 sample lanes with internal standards. |
Internal
$122.00
each
External $147.00 each Corporate $203.00 each |
|
| Blue Pippin size selection 10kb - 18kb |
Size select samples using the Blue Pippin 0.75% agarose cassette, between 10 kb and 18 kb. Smaller size ranges will have lower yields.
Cost is per sample. A normal cassette cartridge contains 4 sample lanes with 1 lane size reference. |
Internal
$122.00
each
External $147.00 each Corporate $203.00 each |
|
| Blue Pippin size selection 18kb - 27kb |
Size select samples using the Blue Pippin 0.75% agarose cassette, between 18 kb and 27 kb. Smaller size ranges will have lower yields.
Cost is per sample. A normal cassette cartridge contains 4 sample lanes with 1 size reference lane. |
Internal
$122.00
each
External $147.00 each Corporate $203.00 each |
|
| ► Shearing (2) | |||
| Name | Description | Price | |
| Covaris M220 Shearing, SnapCap |
Shear in Snap-Cap Covaris tubes with pre-set shearing protocols.
Client gives GRC 130uL of DNA to shear and receives sheared product in shearing tube.
Max 5ug/tube.
|
Internal
$15.00
each
External $18.00 each Corporate $25.00 each |
|
| Covaris M220 Shearing, ScrewCap |
Shear in Screw-Cap Covaris tubes with pre-set shearing protocols.
Client gives GRC 50uL of DNA to shear and receives sheared product in shearing tube.
|
Internal
$16.00
each
External $20.00 each Corporate $27.00 each |
|
| ► Consumables and Reagents (14) | |||
| Name | Description | Price | |
| Magnetic Beads, 1mL |
MagBio, sold ideally in 4mL aliquots
|
Internal
$9.00
each
External $11.00 each Corporate $15.00 each |
|
| Plate of amplicon primer/Illumina double barcoded adapters |
Primer pairs for second-round PCR of amplicon sequences (48 unique pairings, PCR-ready, 2uM). |
Internal
$34.00
each
External $41.00 each Corporate $57.00 each |
|
| Rainin LTS P10-20 Filtered Tips (960/unit) |
1case; 960tips |
Internal
$58.66
each
External $71.00 each Corporate $98.00 each |
|
| Rainin Filtered LTS P200 filtered tips (960/unit) |
1case; 960tips |
Internal
$58.66
each
External $71.00 each Corporate $98.00 each |
|
| Rainin Filtered LTS P1000 Filtered tips (768/unit) |
1case; 768tips |
Internal
$58.66
each
External $71.00 each Corporate $98.00 each |
|
| KingFisher 96well Tip-Comb, Fisher# 4388487 |
Internal
$6.50
each
External $8.00 each Corporate $11.00 each |
||
| KingFisher 96well Deep Plates, 4388476 |
Internal
$8.50
each
External $11.00 each Corporate $15.00 each |
||
| KingFisher 96well Standard Plates, 4388475 |
Internal
$4.17
each
External $6.00 each Corporate $7.00 each |
||
| Custom Sequencing Primer for 2step PCR on Illumina |
Enough custom-seuencing primer for a single MiSeq run |
Internal
$11.20
each
External $14.00 each Corporate $19.00 each |
|
| 24 wells of Nextera DNA/XT compatible dual-barcoded primers |
- ready to use (RTU) |
Internal
$295.00
each
External $354.00 each Corporate $491.00 each |
|
| 48 wells of Nextera DNA/XT compatible dual-barcoded primers |
- ready to use (RTU) |
Internal
$585.00
each
External $702.00 each Corporate $973.00 each |
|
| 72 wells of Nextera DNA/XT compatible dual-barcoded primers |
- ready to use (RTU) |
Internal
$804.00
each
External $965.00 each Corporate $1,338.00 each |
|
| 96 wells of Nextera DNA/XT compatible dual-barcoded primers |
- ready to use (RTU)
|
Internal
$1,059.00
each
External $1,271.00 each Corporate $1,762.00 each |
|
| BigDye |
$/uL |
Internal
$0.80
microliter
External $1.00 microliter Corporate $2.00 microliter |
|
| ► Bioinformatics (1) | |||
| Name | Description | Price | |
| Bioinformatics (Amplicon Cleaning/Processing for Community Analysis) |
An analysis pipeline designed to produce abundance tables for community analysis. The pipeline will take Illumina reads, process for quality and amplicon overlaps, and then assign reads to taxonomic groups according to the RDP classifier. Output will be abundance tables for each taxonomic level as precisely as possible.
|
Internal
$400.00
each
External $480.00 each Corporate $666.00 each |
|
| ► Shipping (1) | |||
| Name | Description | Price | |
| Shipping Overnight FedEx on Dry-Ice |
One-time shipping charge for sending samples to outside facilities for further processing. |
Internal
$174.00
each
External $209.00 each Corporate $290.00 each |
|
| ► Hourly Services (4) | |||
| Name | Description | Price | |
| Bioinformatics (Custom) |
Working closely with the bioinformatics scientists within the core, users will determine to what degree their projects require bioinformatics assistance. Charges are per hour of work. |
Internal
$110.00
/hr
External $132.00 /hr Corporate $216.00 /hr |
|
| Consulting |
Consulting fee charged hourly |
Internal
$51.00
/hr
External $62.00 /hr Corporate $85.00 /hr |
|
| Preliminary Project Meeting (Free) |
Meeting with GRC to discuss a new project, 1hour |
Internal
$0.00
/hr
External $0.00 /hr Corporate $0.00 /hr |
|
| Custom Lab Protocols |
User must coordinate with the Core to determine the best approach for custom labwork.
|
Internal
$50.00
/hr
External $60.00 /hr Corporate $99.00 /hr |
|
| ► PacBio, DNA Isolation (4) | |||
| Name | Description | Price | |
| 1x Test HMW DNA Isolation |
Input: Intact/living/flash-frozen sample |
Internal
$478.00
each
External $574.00 each Corporate $795.00 each |
|
| 2x Test HMW DNA Isolation |
Input: Intact/living/flash-frozen sample |
Internal
$594.00
each
External $713.00 each Corporate $988.00 each |
|
| 3x Test HMW DNA Isolation |
Input: Intact/living/flash-frozen sample |
Internal
$709.00
each
External $851.00 each Corporate $1,180.00 each |
|
| 4x Test HMW DNA Isolation |
Input: Intact/living/flash-frozen sample |
Internal
$824.00
each
External $989.00 each Corporate $1,371.00 each |
|
| ► PacBio, analysis (1) | |||
| Name | Description | Price | |
| CCS processing |
Input: Primary-analysis files from SMRTlink (default paramaters unless otherwise specified) |
Internal
$120.00
each
External $144.00 each Corporate $200.00 each |
|
| ► PacBio, DNA library-prep (13) | |||
| Name | Description | Price | |
| 1x HiFi Library Template Prep Kit 3.0 |
Input: QC'ed DNA of interest ready to shear (up to 16ug, inquire if you have less than 14ug) |
Internal
$1,446.00
each
External $1,736.00 each Corporate $2,405.00 each |
|
| 2x HiFi Library Template Prep Kit 3.0 |
Input: QC'ed DNA of interest ready to shear (up to 16ug, inquire if you have less than 14ug) |
Internal
$2,173.00
each
External $2,608.00 each Corporate $3,614.00 each |
|
| 3x HiFi Library Template Prep Kit 3.0 |
Input: QC'ed DNA of interest ready to shear (up to 16ug, inquire if you have less than 14ug) |
Internal
$2,923.00
each
External $3,508.00 each Corporate $4,861.00 each |
|
| 4x HiFi Library Template Prep Kit 3.0 |
Input: QC'ed DNA of interest ready to shear (up to 16ug, inquire if you have less than 14ug) |
Internal
$3,661.00
each
External $4,394.00 each Corporate $6,089.00 each |
|
| 1x HiFi Amplicon Library Using Express v3.0 kit |
Input: barcoded amplicon of interest |
Internal
$1,106.00
each
External $1,328.00 each Corporate $1,840.00 each |
|
| 2x HiFi Amplicon Library Using Express v3.0 kit |
Input: barcoded amplicon of interest |
Internal
$1,618.00
each
External $1,942.00 each Corporate $2,691.00 each |
|
| 3x HiFi Amplicon Library Using Express v3.0 kit |
Input: barcoded amplicon of interest |
Internal
$2,154.00
each
External $2,585.00 each Corporate $3,583.00 each |
|
| 4x HiFi Amplicon Library Using Express v3.0 kit |
Input: barcoded amplicon of interest |
Internal
$2,678.00
each
External $3,214.00 each Corporate $4,454.00 each |
|
| 5x HiFi Amplicon Library Using Express v3.0 kit |
Input: barcoded amplicon of interest |
Internal
$3,202.00
each
External $3,843.00 each Corporate $5,325.00 each |
|
| 1x CLR Library using Express V3.0 |
Input: QC'ed DNA of interest ready to shear (1,000ng to 10,000ng; inquire if you have less as low-input solutions exist) |
Internal
$1,162.00
each
External $1,395.00 each Corporate $1,933.00 each |
|
| 2x CLR Library using Express V3.0 |
Input: QC'ed DNA of interest ready to shear (1,000ng to 10,000ng; inquire if you have less as low-input solutions exist) |
Internal
$1,766.00
each
External $2,120.00 each Corporate $2,937.00 each |
|
| 3x CLR Library using Express V3.0 |
Input: QC'ed DNA of interest ready to shear (1,000ng to 10,000ng; inquire if you have less as low-input solutions exist) |
Internal
$2,370.00
each
External $2,844.00 each Corporate $3,942.00 each |
|
| 4x CLR Library using Express V3.0 |
Input: QC'ed DNA of interest ready to shear (1,000ng to 10,000ng; inquire if you have less as low-input solutions exist) |
Internal
$2,974.00
each
External $3,569.00 each Corporate $4,946.00 each |
|
| ► PacBio, RNA library-prep (9) | |||
| Name | Description | Price | |
| 1x RNA-to-amplified-cDNA reaction, (for Iso-Seq) |
Input: ribo-depleted or total-RNA of interest, >= 300ng |
Internal
$462.00
each
External $555.00 each Corporate $769.00 each |
|
| 2x RNA-to-amplified-cDNA reactions, (for Iso-Seq) |
Input: ribo-depleted or total-RNA of interest, >= 300ng cumulatively |
Internal
$879.00
each
External $1,055.00 each Corporate $1,462.00 each |
|
| 3x RNA-to-amplified-cDNA reactions, (for Iso-Seq) |
Input: ribo-depleted or total-RNA of interest, >= 300ng cumulatively |
Internal
$1,150.00
each
External $1,380.00 each Corporate $1,913.00 each |
|
| 4x RNA-to-amplified-cDNA reactions, (for Iso-Seq) |
Input: ribo-depleted or total-RNA of interest, >= 300ng cumulatively |
Internal
$1,420.00
each
External $1,704.00 each Corporate $2,362.00 each |
|
| 5x RNA-to-amplified-cDNA reactions, (for Iso-Seq) |
Input: ribo-depleted or total-RNA of interest, >= 300ng cumulatively |
Internal
$1,690.00
each
External $2,028.00 each Corporate $2,811.00 each |
|
| 1x Iso-Seq Library using Express v2.0 kit |
Input: pooled or individual amplified (ds) cDNA, 160-500ng |
Internal
$911.00
each
External $1,094.00 each Corporate $1,515.00 each |
|
| 2x Iso-Seq Libraries using Express v2.0 kit |
Input: pooled or individual amplified (ds) cDNA, 160-500ng/library |
Internal
$1,486.00
each
External $1,784.00 each Corporate $2,472.00 each |
|
| 3x Iso-Seq Libraries using Express v2.0 kit |
Input: pooled or individual amplified (ds) cDNA, 160-500ng/library |
Internal
$2,061.00
each
External $2,474.00 each Corporate $3,428.00 each |
|
| 4x Iso-Seq Libraries using Express v2.0 kit |
Input: pooled or individual amplified (ds) cDNA, 160-500ng/library |
Internal
$2,636.00
each
External $3,164.00 each Corporate $4,384.00 each |
|
| ► PacBio, sequencing (4) | |||
| Name | Description | Price | |
| 1x PacBio Sequel II SMRTcell (8M) |
Input: PacBio compatible library, ready to sequence |
Internal
$3,197.00
each
External $3,837.00 each Corporate $5,317.00 each |
|
| 2x PacBio Sequel II SMRTcell (8M) |
Input: PacBio compatible library, ready to sequence |
Internal
$4,704.00
each
External $5,645.00 each Corporate $7,823.00 each |
|
| 3x PacBio Sequel II SMRTcell (8M) |
Input: PacBio compatible library, ready to sequence |
Internal
$6,211.00
each
External $7,454.00 each Corporate $10,329.00 each |
|
| 4x PacBio Sequel II SMRTcell (8M) |
Input: PacBio compatible library, ready to sequence |
Internal
$7,722.00
each
External $9,267.00 each Corporate $12,842.00 each |
|
| ► PacBio, wet-lab support protocols (4) | |||
| Name | Description | Price | |
| LightBench size-selection, 1x lane |
Input: 25uL DNA of interest, mass varies by cardridge's % agarose and DNA distribution |
Internal
$95.00
each
External $114.00 each Corporate $158.00 each |
|
| LightBench size-selection, 2x lanes |
Input: 50uL DNA of interest, mass varies by cardridge's % agarose and DNA distribution |
Internal
$109.00
each
External $131.00 each Corporate $182.00 each |
|
| LightBench size-selection, 3x lanes |
Input: 75uL DNA of interest, mass varies by cardridge's % agarose and DNA distribution |
Internal
$124.00
each
External $149.00 each Corporate $207.00 each |
|
| LightBench size-selection, 4x lanes |
Input: 100uL DNA of interest, mass varies by cardridge's % agarose and DNA distribution |
Internal
$138.00
each
External $166.00 each Corporate $230.00 each |
|
| ► PacBio, Sequel-II External Library, prepared for sequencing (4) | |||
| Name | Description | Price | |
| 1x Client-Provided HiFi or CLR Library, prep for sequencing |
Input: Library of Interest shipped O/N via FedEx, enough to sequence |
Internal
$644.00
each
External $773.00 each Corporate $1,071.00 each |
|
| 2x Client Provided HiFi or CLR Library, prep for sequencing |
Input: Library of Interest shipped O/N via FedEx, enough to sequence |
Internal
$879.00
each
External $1,055.00 each Corporate $1,462.00 each |
|
| 3x Client-Provided HiFi or CLR Library, prep for sequencing |
Input: Library of Interest shipped O/N via FedEx, enough to sequence |
Internal
$1,115.00
each
External $1,338.00 each Corporate $1,855.00 each |
|
| 4x Client-Provided HiFi or CLR Library, prep for sequencing |
Input: Library of Interest shipped O/N via FedEx, enough to sequence |
Internal
$1,350.00
each
External $1,620.00 each Corporate $2,246.00 each |
|
| ► Training Fees (1) | |||
| Name | Description | Price | |
| Training Fee |
Training in Common Use Core Equipment (IRIC142). |
Internal
$50.00
/hr
External $60.00 /hr Corporate $84.00 /hr |
|
| ► unclassified (1) | |||
| Name | Description | Price | |
| Stranded Illumina RNA library, by hand |
Stranded RNA library made by had from RNA of interest. |
Inquire | |
