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List of works by Sofie R Salama

31st Annual Meeting and Associated Programs of the Society for Immunotherapy of Cancer (SITC 2016): part one

scientific article (publication date: November 2016)

A Distinct DNA Methylation Shift in a Subset of Glioma CpG Island Methylator Phenotypes during Tumor Recurrence

scientific article published in April 2018

A Recurrent Mutation in Anaplastic Lymphoma Kinase with Distinct Neoepitope Conformations.

scientific article published on 30 January 2018

A distal enhancer and an ultraconserved exon are derived from a novel retroposon

scientific article (publication date: 4 May 2006)

An RNA gene expressed during cortical development evolved rapidly in humans

scientific article

An evolutionary arms race between KRAB zinc-finger genes ZNF91/93 and SVA/L1 retrotransposons

scientific article

Barriers to accessing public cancer genomic data.

scientific article published on 20 June 2019

Cerebral Organoids as an Experimental Platform for Human Neurogenomics

scientific article published in 2022

Co-option of the lineage-specific LAVA retrotransposon in the gibbon genome

scientific article published on 20 July 2020

Comparative RNA-Sequencing Analysis Benefits a Pediatric Patient With Relapsed Cancer

scientific article published on 19 April 2018

Comparative RNA-seq analysis aids in diagnosis of a rare pediatric tumor

scientific article published on 23 October 2019

Comparative Tumor RNA Sequencing Analysis for Difficult-to-Treat Pediatric and Young Adult Patients With Cancer

scientific article published on 02 October 2019

Complete genomic and epigenetic maps of human centromeres

scientific article published in April 2022

Complete genomic and epigenetic maps of human centromeres

scientific article published on 13 July 2021

Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas

scientific article

DIPG-07. GENOMIC ANALYSIS METHODS FOR IDENTIFICATION OF CANCER DRIVER PATHWAYS IN CHILDHOOD BRAIN TUMORS.

scientific article

Distinct Epigenetic Shift in a Subset of Glioma CpG Island Methylator Phenotype (G-CIMP) During Tumor Recurrence

scholarly article published in 2018

Double minute chromosomes in glioblastoma multiforme are revealed by precise reconstruction of oncogenic amplicons

scientific article published on 12 August 2013

EPIG-16MOST DIFFERENTIAL DNA METHYLATION CHANGES OCCUR AT CANDIDATE ENHANCER ELEMENTS FOR RECURRENT LOWER GRADE GLIOMA AND GLIOBLASTOMA.

scientific article

Endangered species hold clues to human evolution

scientific article (publication date: 2010)

Establishing Cerebral Organoids as Models of Human-Specific Brain Evolution

scientific article published on 01 February 2019

Forces Shaping the Fastest Evolving Regions in the Human Genome

Forces shaping the fastest evolving regions in the human genome

scientific article

FragSeq: transcriptome-wide RNA structure probing using high-throughput sequencing

scientific article

GC-biased evolution near human accelerated regions

scientific article

GE-41COMPREHENSIVE AND INTEGRATIVE GENOMIC CHARACTERIZATION OF DIFFUSE LOWER GRADE GLIOMAS

scientific article published in November 2014

GENE-11. SHARED LONG NON-CODING RNA DYSREGULATION IN HISTONE H3 K27M GLIOMAS AND PF-A EPENDYMOMAS

GENO-06A PAN-GLIOMA CHARACTERIZATION OF GENOMIC, EPIGENOMIC AND TRANSCRIPTOMIC ACTIVITIES REVEALS NOVEL RELATIONSHIPS BETWEEN HISTOLOGICAL SUBTYPES AND MOLECULAR SIGNATURES.

scientific article

Gene isoform specificity through enhancer-associated antisense transcription

scientific article

Human genome ultraconserved elements are ultraselected

scientific article

Human-Specific NOTCH2NL Genes Affect Notch Signaling and Cortical Neurogenesis

article

Hydra: A mixture modeling framework for subtyping pediatric cancer cohorts using multimodal gene expression signatures

scientific article published on 10 April 2020

Identification of a differentiation stall in epithelial mesenchymal transition in histone H3-mutant diffuse midline glioma

scientific article published on 01 December 2020

Integrating transcriptional and metabolite profiles to direct the engineering of lovastatin-producing fungal strains.

scientific article published on 21 January 2003

Light-weight electrophysiology hardware and software platform for cloud-based neural recording experiments

scientific article published on 20 October 2021

Low cost cloud based remote microscopy for biological sciences

scientific article published on 11 September 2021

Modulation of neuronal activity in cortical organoids with bioelectronic delivery of ions and neurotransmitters

scholarly article published in January 2024

Molecular Profiling Reveals Biologically Discrete Subsets and Pathways of Progression in Diffuse Glioma

scientific article published on January 2016

Nanopore sequencing and the Shasta toolkit enable efficient de novo assembly of eleven human genomes

scientific article published on 04 May 2020

Noncoding RNAs in the brain.

scientific article published on October 2007

Picroscope: low-cost system for simultaneous longitudinal biological imaging

scientific article published on 04 November 2021

ProTECT-Prediction of T-Cell Epitopes for Cancer Therapy

scientific article published on 10 November 2020

Regulation of rugosity and biofilm formation in Vibrio cholerae: comparison of VpsT and VpsR regulons and epistasis analysis of vpsT, vpsR, and hapR.

scientific article published on 27 October 2006

SHAPE Selection (SHAPES) enrich for RNA structure signal in SHAPE sequencing-based probing data

scientific article

Sequence diversity analyses of an improved rhesus macaque genome enhance its biomedical utility

scientific article

Species-specific endogenous retroviruses shape the transcriptional network of the human tumor suppressor protein p53.

scholarly article

Structurally Conserved Primate LncRNAs Are Transiently Expressed during Human Cortical Differentiation and Influence Cell-Type-Specific Genes

article

The Somatic Genomic Landscape of Glioblastoma

article

The UCSC repeat browser allows discovery and visualization of evolutionary conflict across repeat families

scientific article published on 31 March 2020

The somatic genomic landscape of glioblastoma

scientific article

Three periods of regulatory innovation during vertebrate evolution ⬇️

scientific article

TumorMap: Exploring the Molecular Similarities of Cancer Samples in an Interactive Portal

scientific article published in November 2017

Where are we now? And where are we going? A report from the Accelerate Brain Cancer Cure (ABC2) low-grade glioma research workshop.

scientific article published on 04 December 2013

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