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SeSAMe: reducing artifactual detection of DNA methylation by Infinium BeadChips in genomic deletions

Nucleic acids research, 2018-11

2018

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Low-level processing of Illumina Infinium DNA Methylation BeadArrays

Nucleic acids research, 2013-04, Vol.41 (7), p.e90-e90

2013

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Preprocessing, normalization and integration of the Illumina HumanMethylationEPIC array with minfi

Bioinformatics (Oxford, England), 2017-02, Vol.33 (4), p.558-560

2017

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BISCUIT: an efficient, standards-compliant tool suite for simultaneous genetic and epigenetic inference in bulk and single-cell studies

Nucleic acids research, 2024-04, Vol.52 (6), p.e32-e32

2024

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Author Correction: CelFiE-ISH: a probabilistic model for multi-cell type deconvolution from single-molecule DNA methylation haplotypes

Genome Biology, 2024-07, Vol.25 (1), p.182-1, Article 182

2024

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Persistence of SARS CoV-2 S1 Protein in CD16+ Monocytes in Post-Acute Sequelae of COVID-19 (PASC) up to 15 Months Post-Infection

Frontiers in immunology, 2022-01, Vol.12, p.746021-746021

2022

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Discovery and validation of a prostate cancer genomic classifier that predicts early metastasis following radical prostatectomy

PloS one, 2013-06, Vol.8 (6), p.e66855-e66855

2013

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CelFiE-ISH: a probabilistic model for multi-cell type deconvolution from single-molecule DNA methylation haplotypes

Genome Biology, 2024-06, Vol.25 (1), p.151-27, Article 151

2024

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Long Noncoding RNA Expression Independently Predicts Outcome in Pediatric Acute Myeloid Leukemia

Journal of clinical oncology, 2023-06, Vol.41 (16), p.2949-2962

2023

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GLI3 repressor determines Hedgehog pathway activation and is required for response to SMO antagonist glasdegib in AML

Blood, 2017-06, Vol.129 (26), p.3465-3475

2017

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The long noncoding RNA SChLAP1 promotes aggressive prostate cancer and antagonizes the SWI/SNF complex

Nature genetics, 2013-11, Vol.45 (11), p.1392-1398

2013

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Dysregulated heparan sulfate proteoglycan metabolism promotes Ewing sarcoma tumor growth

eLife, 2022-03, Vol.11

2022

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EGFR-dependent endocytosis of Wnt9a and Fzd9b promotes β-catenin signaling during hematopoietic stem cell development in zebrafish

Science signaling, 2024-04, Vol.17 (832), p.eadf4299

2024

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A B-cell developmental gene regulatory network is activated in infant AML

PloS one, 2021-11, Vol.16 (11), p.e0259197-e0259197

2021

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Ten quick tips for deep learning in biology

PLoS computational biology, 2022-03, Vol.18 (3), p.e1009803-e1009803

2022

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Comprehensive Transcriptome Profiling of Cryptic CBFA2T3-GLIS2 Fusion-Positive AML Defines Novel Therapeutic Options: A COG and TARGET Pediatric AML Study

Clinical cancer research, 2020-02, Vol.26 (3), p.726-737

2020

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Translational Activation of Snail1 and Other Developmentally Regulated Transcription Factors by YB-1 Promotes an Epithelial-Mesenchymal Transition

Cancer cell, 2009-05, Vol.15 (5), p.402-415

2009

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Emerging variants of concern in SARS-CoV-2 membrane protein: a highly conserved target with potential pathological and therapeutic implications

Emerging microbes & infections, 2021-01, Vol.10 (1), p.885-893

2021

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Sequence-specific knockdown of EWS-FLI1 by targeted, nonviral delivery of small interfering RNA inhibits tumor growth in a murine model of metastatic Ewing's sarcoma

Cancer research (Chicago, Ill.), 2005-10, Vol.65 (19), p.8984-8992

2005

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A central role for long non-coding RNA in cancer

Frontiers in genetics, 2012, Vol.3, p.17-17

2012

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Integrative genomic analysis of matched primary and metastatic pediatric osteosarcoma

The Journal of pathology, 2019-11, Vol.249 (3), p.319-331

2019

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Landscape of Germline and Somatic Mitochondrial DNA Mutations in Pediatric Malignancies

Cancer research (Chicago, Ill.), 2019-04, Vol.79 (7), p.1318-1330

2019

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The majority of total nuclear-encoded non-ribosomal RNA in a human cell is 'dark matter' un-annotated RNA

BMC biology, 2010-12, Vol.8 (1), p.149-149, Article 149

2010

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Suppression of Transposable Elements in Leukemic Stem Cells

Scientific reports, 2017-08, Vol.7 (1), p.7029-11, Article 7029

2017

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Prevalence of alternative lengthening of telomeres in pediatric sarcomas determined by the telomeric DNA C-circle assay

Frontiers in oncology, 2024-08, Vol.14, p.1399442

2024

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SeSAMe: reducing artifactual detection of DNA methylation by Infinium BeadChips in genomic deletions

Low-level processing of Illumina Infinium DNA Methylation BeadArrays

Preprocessing, normalization and integration of the Illumina HumanMethylationEPIC array with minfi

BISCUIT: an efficient, standards-compliant tool suite for simultaneous genetic and epigenetic inference in bulk and single-cell studies

Author Correction: CelFiE-ISH: a probabilistic model for multi-cell type deconvolution from single-molecule DNA methylation haplotypes

Persistence of SARS CoV-2 S1 Protein in CD16+ Monocytes in Post-Acute Sequelae of COVID-19 (PASC) up to 15 Months Post-Infection

Discovery and validation of a prostate cancer genomic classifier that predicts early metastasis following radical prostatectomy

CelFiE-ISH: a probabilistic model for multi-cell type deconvolution from single-molecule DNA methylation haplotypes

Long Noncoding RNA Expression Independently Predicts Outcome in Pediatric Acute Myeloid Leukemia

GLI3 repressor determines Hedgehog pathway activation and is required for response to SMO antagonist glasdegib in AML

The long noncoding RNA SChLAP1 promotes aggressive prostate cancer and antagonizes the SWI/SNF complex

Dysregulated heparan sulfate proteoglycan metabolism promotes Ewing sarcoma tumor growth

EGFR-dependent endocytosis of Wnt9a and Fzd9b promotes β-catenin signaling during hematopoietic stem cell development in zebrafish

A B-cell developmental gene regulatory network is activated in infant AML

Ten quick tips for deep learning in biology

Comprehensive Transcriptome Profiling of Cryptic CBFA2T3-GLIS2 Fusion-Positive AML Defines Novel Therapeutic Options: A COG and TARGET Pediatric AML Study

Translational Activation of Snail1 and Other Developmentally Regulated Transcription Factors by YB-1 Promotes an Epithelial-Mesenchymal Transition

Emerging variants of concern in SARS-CoV-2 membrane protein: a highly conserved target with potential pathological and therapeutic implications

Sequence-specific knockdown of EWS-FLI1 by targeted, nonviral delivery of small interfering RNA inhibits tumor growth in a murine model of metastatic Ewing's sarcoma

A central role for long non-coding RNA in cancer

Integrative genomic analysis of matched primary and metastatic pediatric osteosarcoma

Landscape of Germline and Somatic Mitochondrial DNA Mutations in Pediatric Malignancies

The majority of total nuclear-encoded non-ribosomal RNA in a human cell is 'dark matter' un-annotated RNA

Suppression of Transposable Elements in Leukemic Stem Cells

Prevalence of alternative lengthening of telomeres in pediatric sarcomas determined by the telomeric DNA C-circle assay

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