Labshake search
Citations for Illumina :
301 - 350 of 356 citations for Mouse Anti Human Papilloma virus type 11 711 13 since 2019
Citations are collected from bioRxiv only, the total number of publications could be much larger.
-
bioRxiv - Genomics 2020Quote: ... CNV analysis was performed on a combined cohort of 130 sequenced hESC lines and a control cohort consisting of 243 human samples from primary blood or lymphoblastoid cell lines (LCL) that had undergone WGS on the same platform (Illumina HiSeqX) and to similar depth as the hESC lines (Pato et al. ...
-
bioRxiv - Cancer Biology 2020Quote: ... We used summarized log-scale intensities representing copy number profiles generated by combining probe intensities from four platforms (Agilent Human Genome CGH Microarray 44A, Nimblegen HG19 CGH 385K WG Tiling v2.0, Affymetrix GeneChip Human Mapping 500k Array Set and Illumina Human1Mv1_C BeadChip). A threshold of ≥ 0.9 and ≤ -0.9 was used to call copy number gains and losses ...
-
bioRxiv - Evolutionary Biology 2020Quote: ... RNA-Seq libraries were prepared using TruSeq Stranded Total RNA Library Prep Kit with Ribo-Zero Human (RS-122-2201, Illumina Inc.) following manufacturer’s protocol ...
-
Human CCR6+ Th cells show both an extended stable gradient of Th17 activity and imprinted plasticitybioRxiv - Immunology 2023Quote: ... The bisulfite-converted DNA samples were then processed for hybridization and staining using either the Illumina Infinium Human Methylation 450 BeadChip Kit or the Illumina Infinium MethylationEPIC BeadChip Kit (Illumina Inc.) according to the manufacturer’s recommendations ...
-
Human CCR6+ Th cells show both an extended stable gradient of Th17 activity and imprinted plasticitybioRxiv - Immunology 2023Quote: ... The resulting cRNA samples were hybridized to an Illumina Human WG6 Expression BeadChip array for 14-20 hour at 58°C in an Illumina Hybridization Oven (Illumina Inc.). Arrays were washed and scanned following the protocols in the Illumina Whole-Genome Gene Expression Direct Hybridization Assay Guide (Illumina) ...
-
bioRxiv - Cancer Biology 2023Quote: ... The resulting FASTQ files were aligned to the human reference genome (build GRChg38) and transcript abundance was quantified using salmon (Illumina DRAGEN). The DESeq2 package was used to identify differentially expressed transcripts between the H3.3E50K and wildtype H3.3 expressing HMECDD cells ...
-
bioRxiv - Genomics 2019Quote: ... The reads were aligned to the mouse reference genome (mm10) with Isaac aligner (Illumina). Duplicated reads were identified and removed with Picard (http://broadinstitute.github.io/picard/) ...
-
bioRxiv - Molecular Biology 2023Quote: ... The DNA methylation profiling was carried out using the Infinium Mouse Methylation BeadChip (Illumina) according to the manufacturer’s standard protocol ...
-
bioRxiv - Neuroscience 2021Quote: ... Genome integrity of hiPSC lines was assessed by an Illumina Human CytoSNP-12v2.1 beadchip array and analysed using KaryoStudio software (Illumina, San Diego, CA).
-
bioRxiv - Genetics 2019Quote: ... with the European individuals from the 1000G phase 3 reference panel and from the Human Genome Diversity Panel data30 (HGDP, Illumina HuHap 650k), to generate four genome-wide SNP datasets analyzed independently.
-
bioRxiv - Genetics 2021Quote: ... DNAm was then measured at 485,577 CpG sites across the genome using the Illumina Infinium Human Methylation 450K BeadChip microarray (Illumina, San Diego, CA). We received two versions of the DNAm data ...
-
bioRxiv - Pathology 2021Quote: ... Gene expression microarray analysis was performed with mouse Sentrix® BeadChips (Illumina; San Diego, CA). We followed the workflow established by the manufacturer ...
-
bioRxiv - Immunology 2023Quote: ... and processed and hybridized to individual array wells of an Infinium Mouse Methylation BeadChip (Illumina), as previously described 25 ...
-
bioRxiv - Immunology 2021Quote: SNP-array copy number profiling and analysis of regions of homozygosity were performed on DNA isolated from WT and CRISPR-Cas9 edited LCLs (ERAP2-KO) according to standard procedures using the Infinium Human CytoSNP-850K v1.2 BeadChip (Illumina, San Diego, CA, USA). Samples were scanned using the iScan system (Illumina) ...
-
bioRxiv - Immunology 2021Quote: ... Genotyping of the VRC cohort and imputation of genetic variants are described in detail elsewhere.55 We interrogated 7,637,921 variants (imputed from 2,783,635 genetic variants with a minor allele frequency ≥ 5%, measured using the Illumina Human Omni 5 BeadChip array, GRCh37) for an association with each of the 166 ToxScan peptides using the penalized quasi-likelihood (PQL ...
-
bioRxiv - Genomics 2023Quote: ... and patient-derived LCLs was used for SNP-array copy number profiling and analysis of regions of homozygosity with the Infinium Human CytoSNP-850K v1.2 BeadChip (Illumina, San Diego, CA, USA). This array has ∼850,000 single nucleotide polymorphisms (SNPs ...
-
bioRxiv - Genomics 2019Quote: DNA was extracted and genotyped from a total of 867 samples (START mothers) using the Illumina Human CoreExome-24 and Infinium CoreExome-24 arrays (Illumina, San-Digeo, CA, USA). Data was cleaned using standard quality control (QC ...
-
bioRxiv - Genetics 2024Quote: ... Bisulfite-converted DNA samples were randomly assigned to a chip well on the Infinium Human Methylation EPIC v2 BeadChip (Illumina, Inc., San Diego, CA) or in the Human Imprintome array BeadChip (Illumina ...
-
bioRxiv - Cancer Biology 2024Quote: ... was shipped on dry ice to the UCLA Neurogenomics Core facility (Los Angeles, CA) for analysis using Illumina HT-12 v4 human microarrays (Illumina Inc., San Diego, CA). The order of the sections was randomized prior to shipment to avoid confounding potential technical artifacts with potential biological gradients of gene expression ...
-
bioRxiv - Evolutionary Biology 2024Quote: ... Construction of DNA libraries was performed by the Michigan Department of Health and Human Services using the Nextera XT library prep kit (Illumina, San Diego, CA, USA) followed by sequencing on the MiSeq (Illumina ...
-
bioRxiv - Neuroscience 2022Quote: ... For mouse and rat sequencing data the reference genome GRCm38 and Rnor 6.0 provided by Illumina igenomes were used ...
-
bioRxiv - Genetics 2023Quote: For samples to be run on the Illumina Infinium® Mouse Methylation BeadChip Array (Illumina, 20041558), 7 μL of recovered TrueMethyl template were mixed with 1 μL of 0.4 N NaOH following manufacturer’s instructions ...
-
bioRxiv - Genomics 2020Quote: ... Further sample QC was performed by Illumina to ensure that the concentration of the DNA was > 30 ng/μl and that every sample generated high quality genotyping results (Illumina Infinium Human Core Exome microarray). Samples with a repeated array genotyping call rate < 0.99 ...
-
bioRxiv - Neuroscience 2021Quote: ... using Agilent SureSelectXT Clinical Research Exome (SureSelectXT Human All Exon V5 baited with clinically relevant genes) and the Illumina NextSeq 550 sequencer (Illumina, Inc., San Diego, CA, USA) according to the manufacturer’s protocol.
-
bioRxiv - Genetics 2022Quote: ... Ancient individuals and present-day individuals (most genotyped on the HO SNP array, and some also genotyped on the Illumina Human Omni5 Bead Chip [28]) were projected into the three-dimensional (3D ...
-
bioRxiv - Cell Biology 2022Quote: Gene expression was measured with the Illumina Mouse Whole Genome array (Illumina Inc.,San Diego,CA,USA). Sample preparations ...
-
bioRxiv - Cancer Biology 2019Quote: ... gene expression analysis was performed using Illumina’s Mouse Ref 8 Beadchip v1 (Illumina Inc, San Diego, CA). These datasets have been deposited in GEO as accession entry GSE22520 and described in Supplemental Table 1c ...
-
bioRxiv - Developmental Biology 2023Quote: Sequenced reads were mapped to and annotated by using the mouse reference genome GRCm38/mm10 (iGenomes, Illumina; archive-2015-07-17-32-40 and archive-2015-07-17-33-26 for GRCM38 and mm10 ...
-
bioRxiv - Neuroscience 2024Quote: ... 3 brain regions per mouse using the TruSeq stranded mRNA LT kit (Cat# RS-122-2101, Illumina). These synthetic RNAs cover a range of concentrations ...
-
bioRxiv - Genomics 2022Quote: Genome-wide DNA methylation was performed using the Illumina Infinium Mouse Methylation BeadChip (Illumina, San Diego, CA, USA) following the standard manufacturer’s protocol ...
-
bioRxiv - Developmental Biology 2022Quote: ... and depleted of rRNA using the Ribo-Zero Magnetic Kit HMN/Mouse/Rat 24 Rxn (Illumina; Cat# MRZH11124) according to the manufacturer’s protocol using a low input protocol with 2-4µL rRNA removal solution yielding a 20µL final sample volume added to 90µL magnetic beads ...
-
bioRxiv - Biochemistry 2019Quote: ... For whole genome sequencing of mouse RNA a library was generated with Truseq Small RNA Library Preparation kit (Illumina) according to the manufacturer’s protocol ...
-
bioRxiv - Neuroscience 2020Quote: ... Each sample (microglia sorted from a single mouse brain) was processed to obtain a RiboZero Stranded Gold Library (Illumina) and sequenced in HiSeq 4000 sequencer in paired-end configuration with 150bp sequence reads (Illumina) ...
-
bioRxiv - Genetics 2021Quote: ... the UCSC mm10 mouse reference genome (fasta) and gene annotation (General Transfer Format (GTF)) file were downloaded from Illumina iGenomes (https://sapac.support.illumina.com/sequencing/sequencing_software/iGenome.html) ...
-
bioRxiv - Cancer Biology 2022Quote: mRNA libraries of the mouse melanoma tumor (n = 12) samples were prepared and sequenced using the HiSeq 2000 (Illumina). RNAseq data were processed by pyflow-RNAseq (Tang ...
-
bioRxiv - Genetics 2022Quote: ... sequence reads were mapped to the mouse reference genome GRCm38/mm10 (iGenomes, Illumina; chromosomes 1-19, X, Y, M) using the Rsubread v1.28.1 package in R v3.4.4 ...
-
bioRxiv - Genomics 2022Quote: ... The cost of consumables for BeadChip assay were taken from the list price for Infinium Mouse Methylation BeadChip on Illumina’s website (Illumina, catalog numbers 20041558 ...
-
bioRxiv - Cell Biology 2020Quote: ... cDNA libraries were constructed from individual mouse samples and RNA-seq libraries were constructed using the Nextera XT DNA Library Preparation Kit (Illumina). Libraries were sequenced on the Illumina platform ...
-
bioRxiv - Developmental Biology 2021Quote: ... RNAseq reads were aligned against to Ensembl Mouse genome (NCBIM37) reference sequence assembly and transcript annotation that obtained from Illumina iGenomes (https://support.illumina.com/sequencing/sequencing_software/igenome.html ...
-
bioRxiv - Biochemistry 2022Quote: ... Raw sequencing reads were aligned to the mouse genome (mm9) and the corresponding GTF file (downloaded from Illumina’s IGenomes site) using TopHat v.2.1.1 with parameters i= 30 ...
-
bioRxiv - Molecular Biology 2020Quote: ... RNA-seq for the mouse heart tissues were performed using next generation high throughput sequencing method (Illumina HiSeq 2000, Illumina). Total RNAs were isolated ...
-
bioRxiv - Molecular Biology 2020Quote: ... RNA-seq for the mouse heart tissues were performed using next generation high throughput sequencing method (Illumina HiSeq 2000, Illumina). Total RNAs were isolated ...
-
bioRxiv - Physiology 2021Quote: Sodium-bisulfite treated DNA of nine samples (6 dHT vehicle treated and 3 dHT drug treated) was subjected to measure global DNAm by Infinium Mouse methylation BeadChip array (Illumina) according to manufacturer’s instructions ...
-
bioRxiv - Genomics 2020Quote: RNA from a subset of human fetal (n = 3) and mouse (n = 8) cortex tissue samples was prepared with TruSeq Stranded mRNA Sample Prep Kit (Illumina) and subjected to 125bp paired-end sequencing using a HiSeq2500 (Illumina) ...
-
bioRxiv - Cancer Biology 2023Quote: ... Hisat2 41–43 was used to align the clean data to mouse reference genome mm10 which we downloaded from Illumina iGenomes database ...
-
bioRxiv - Developmental Biology 2023Quote: 1000 ng of bisulfite-treated sperm DNA was loaded onto Illumina Infinium Mouse Methylation-12v1-0 BeadChip (llumina) and was ran on an Illumina iScan System (Illumina) per manufacturer’s standard protocol ...
-
bioRxiv - Neuroscience 2021Quote: ... Indexed libraries for each mouse line were independently pooled and sequenced twice on a Next-Seq 500 (Illumina; San Diego, CA) with sequencing parameters set at Read 1 ...
-
bioRxiv - Cancer Biology 2020Quote: ... USA) that were sorted from BM of leukemic/pre-leukemic/BB engrafted mouse and sequenced on NextSeq 500 System (Illumina USA)
-
bioRxiv - Genomics 2022Quote: ... 500 ng of DNA from the same 48 samples was sent to FOXO Technologies for analysis on the Infinium Mouse Methylation BeadChip (Illumina, 20041559). 18 of these DNA samples with at least 100 ng of DNA remaining were prepared and analyzed with RRBS using published library preparation methods12 ...
-
bioRxiv - Neuroscience 2020Quote: ... Brain cortex and striatum were dissected and mouse whole-genome profiling was performed using the Illumina BeadChip® platform (Illumina; San Diego, CA). According to the manufacturer ...