Search filters

List of works by Alexander Stark

A computational pipeline for comparative ChIP-seq analyses

scientific article published on 15 December 2011

A conserved role for Snail as a potentiator of active transcription

scientific article published on 8 January 2014

A dynamic structural model for estrogen receptor-alpha activation by ligands, emphasizing the role of interactions between distant A and E domains

scientific article published in November 2002

A high-resolution map of human evolutionary constraint using 29 mammals

scientific article

A high-throughput method to identify trans-activation domains within transcription factor sequences

scholarly article by Cosmas D Arnold published in August 2018

A histone deacetylase adjusts transcription kinetics at coding sequences during Candida albicans morphogenesis

scientific article

A model for statistical significance of local similarities in structure.

scientific article

A single Hox locus in Drosophila produces functional microRNAs from opposite DNA strands

scientific article (publication date: 2008)

A systematic analysis of Drosophila TUDOR domain-containing proteins identifies Vreteno and the Tdrd12 family as essential primary piRNA pathway factors

scientific article published on 23 August 2011

Accurate prediction of peptide binding sites on protein surfaces.

scientific article

An endogenous small interfering RNA pathway in Drosophila

scientific article

An epigenetic role for maternally inherited piRNAs in transposon silencing

scientific article

Animal MicroRNAs confer robustness to gene expression and have a significant impact on 3'UTR evolution

scientific article (publication date: 16 December 2005)

Annotation in three dimensions. PINTS: Patterns in Non-homologous Tertiary Structures

scientific article

Coherent but overlapping expression of microRNAs and their targets during vertebrate development

scientific article published on February 2009

Combinatorial function of transcription factors and cofactors

scientific article published on 19 January 2017

Comparative genomics of gene regulation-conservation and divergence of cis-regulatory information.

scientific article

Conservation of small RNA pathways in platypus

scientific article

Coordinating the human looks

scientific article published in September 2015

Crystal structure of an archaeal class I aldolase and the evolution of (betaalpha)8 barrel proteins

scientific article

Deciphering the transcriptional cis-regulatory code

scientific article published on 23 October 2012

Denoising feedback loops by thresholding--a new role for microRNAs

scientific article published on October 2006

Developmental gene regulation in the era of genomics

scientific article published on 04 January 2010

Differential cofactor dependencies define distinct types of human enhancers

scientific article published in 2022

Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures

scientific article

Discrete small RNA-generating loci as master regulators of transposon activity in Drosophila

scientific article

Dissection of thousands of cell type-specific enhancers identifies dinucleotide repeat motifs as general enhancer features.

scientific article

Diverse endonucleolytic cleavage sites in the mammalian transcriptome depend upon microRNAs, Drosha, and additional nucleases

scientific article

Enhancer-core-promoter specificity separates developmental and housekeeping gene regulation.

scientific article published on 15 December 2014

Eukaryotic core promoters and the functional basis of transcription initiation

scientific article published on 01 October 2018

Evolution of genes and genomes on the Drosophila phylogeny

scientific article

Evolution, biogenesis, expression, and target predictions of a substantially expanded set of Drosophila microRNAs

scientific article

Finding functional sites in structural genomics proteins.

scientific article

Forward and reverse genetics through derivation of haploid mouse embryonic stem cells.

scientific article published on December 2011

Genome analysis of the platypus reveals unique signatures of evolution

scientific article

Genome-scale functional characterization of Drosophila developmental enhancers in vivo

scientific article

Genome-wide analysis of mRNAs regulated by Drosha and Argonaute proteins in Drosophila melanogaster

scientific article published on April 2006

Genome-wide quantitative enhancer activity maps identified by STARR-seq

scientific article

Genomics: Hiding in plain sight

scientific article published in August 2014

HOT regions function as patterned developmental enhancers and have a distinct cis-regulatory signature

scientific article published on 12 April 2012

High conservation of transcription factor binding and evidence for combinatorial regulation across six Drosophila species

scientific article published on 10 April 2011

Histone modifications at human enhancers reflect global cell-type-specific gene expression

scientific article (publication date: 7 May 2009)

Hormone-responsive enhancer-activity maps reveal predictive motifs, indirect repression, and targeting of closed chromatin

scientific article published on 27 March 2014

Identification of Drosophila MicroRNA targets

scientific article

Learning the transcriptional regulatory code

scientific article published on 17 November 2009

Loss of the Mili-interacting Tudor domain-containing protein-1 activates transposons and alters the Mili-associated small RNA profile

scientific journal article

Mouse MOV10L1 associates with Piwi proteins and is an essential component of the Piwi-interacting RNA (piRNA) pathway

scientific journal article

Multiplexed detection of SARS-CoV-2 and other respiratory infections in high throughput by SARSeq

scientific article published on 25 May 2021

Neural-specific elongation of 3' UTRs during Drosophila development

scientific article

Not miR-ly muscular: microRNAs and muscle development

scientific article

PHF3 regulates neuronal gene expression through the Pol II CTD reader domain SPOC

scientific article published on 19 October 2021

Predictions without templates: New folds, secondary structure, and contacts in CASP5 ⬇️

scientific article published on January 1, 2003

Principles of microRNA-target recognition

scientific article

Quantitative genome-wide enhancer activity maps for five Drosophila species show functional enhancer conservation and turnover during cis-regulatory evolution

scientific article

RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo

scientific article

RNA-binding profiles of Drosophila CPEB proteins Orb and Orb2.

scientific article published on 24 October 2016

Reliable prediction of regulator targets using 12 Drosophila genomes

scientific article

Resolving systematic errors in widely used enhancer activity assays in human cells.

scientific article

Specialized piRNA pathways act in germline and somatic tissues of the Drosophila ovary

scientific article

Systematic discovery and characterization of fly microRNAs using 12 Drosophila genomes

scientific article

Systematic discovery of new recognition peptides mediating protein interaction networks

scientific article

Systematic genetic analysis of muscle morphogenesis and function in Drosophila

scientific article

Temporal reciprocity of miRNAs and their targets during the maternal-to-zygotic transition in Drosophila

scientific article

The Mitochondrial Permeability Transition Augments Fas-induced Apoptosis in Mouse Hepatocytes

scientific article published in Journal of Biological Chemistry

The Relationship Between Sequence and Interaction Divergence in Proteins ⬇️

scientific article published on October 3, 2003

The TDRD9-MIWI2 complex is essential for piRNA-mediated retrotransposon silencing in the mouse male germline

scientific journal article

The Tasmanian devil transcriptome reveals Schwann cell origins of a clonally transmissible cancer

scientific article

Transcriptional enhancers: from properties to genome-wide predictions

scientific article published on 11 March 2014

Transcriptional plasticity promotes primary and acquired resistance to BET inhibition

scientific article published on 14 September 2015

Uncovering cis-regulatory sequence requirements for context-specific transcription factor binding

scientific article published on 25 April 2012

Whole-genome ChIP-chip analysis of Dorsal, Twist, and Snail suggests integration of diverse patterning processes in the Drosophila embryo

scientific article published on February 2007

Widespread regulatory specificities between transcriptional co-repressors and enhancers in <i>Drosophila</i>

scientific article published on 13 July 2023

bantam encodes a developmentally regulated microRNA that controls cell proliferation and regulates the proapoptotic gene hid in Drosophila

scientific article (publication date: 4 April 2003)

cis-regulatory requirements for tissue-specific programs of the circadian clock

scientific article published on 12 December 2013

mRNA degradation by miRNAs and GW182 requires both CCR4:NOT deadenylase and DCP1:DCP2 decapping complexes

scientific article

Paulina is supported by:

About Paulina

Help