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Related publications (22)

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Resolving bacterial cell biology: from replisome dynamics to cell wall synthesis

Chen Zhang

Bacteria are ubiquitous single cellular organisms. Compared to eukaryotic cells, bacteria have two unique characteristics: the membrane-less nucleoid and the cell wall built of peptidoglycan (PG). In most bacteria, a single circular chromosome is compacted ...

EPFL2024

Novel Methods For Detection And Analysis Of Atypical Aspects In Speech

Julian David Fritsch

Atypical aspects in speech concern speech that deviates from what is commonly considered normal or healthy. In this thesis, we propose novel methods for detection and analysis of these aspects, e.g. to monitor the temporary state of a speaker, diseases tha ...

EPFL2023

Sequential and directional insulation by conserved CTCF sites underlies the Hox timer in stembryos

Denis Duboule, Lucille Delisle, Alexandre Gauthier Aurèle Mayran, Hocine Rekaik, Célia Corinne Renée Bochaton

Temporal activation of Hox genes in mouse pseudo-embryos in vitro initiates at the anterior part of the cluster and is accompanied by asymmetric loading of cohesin. Posterior CTCF sites then successively act as transient insulators, regulating the timed tr ...

NATURE PORTFOLIO2023

Constrained Language Models for Interactive Poem Generation

Andrei Popescu-Belis, Alejandro Ramírez Atrio, Gabriel Luthier

This paper describes a system for interactive poem generation, which combines neural language models (LMs) for poem generation with explicit constraints that can be set by users on form, topic, emotion, and rhyming scheme. LMs cannot learn such constraints ...

EUROPEAN LANGUAGE RESOURCES ASSOC-ELRA2022

A satellite DNA array barcodes chromosome 7 and regulates totipotency via ZFP819

Didier Trono, Gabriela Ecco

Mammalian genomes are a battleground for genetic conflict between repetitive elements and KRAB-zinc finger proteins (KZFPs). We asked whether KZFPs can regulate cell fate by using ZFP819, which targets a satellite DNA array, ZP3AR. ZP3AR coats megabase reg ...

2022

Selective Retrieval of Individual Cells from Microfluidic Arrays Combining Dielectrophoretic Force and Directed Hydrodynamic Flow

Bart Deplancke, Carlotta Guiducci, Jörn Pezoldt, Kevin Keim, Pierre-Emmanuel Marie Thiriet, Gabriele Gambardella

Hydrodynamic-based microfluidic platforms enable single-cell arraying and analysis over time. Despite the advantages of established microfluidic systems, long-term analysis and proliferation of cells selected in such devices require off-chip recovery of ce ...

MDPI2020

The MIDI Degradation Toolkit: Symbolic Music Augmentation and Correction

Andrew Philip McLeod

In this paper, we introduce the MIDI Degradation Toolkit (MDTK), containing functions which take as input a musical excerpt (a set of notes with pitch, onset time, and duration), and return a ``degraded'' version of that excerpt with some error (or errors) ...

2020

Opposing chromatin remodelers control transcription initiation frequency and start site selection

Philipp Bucher, René Dreos

Precise nucleosome organization at eukaryotic promoters is thought to be generated by multiple chromatin remodeler (CR) enzymes and to affect transcription initiation. Using an integrated analysis of chromatin remodeler binding and nucleosome occupancy fol ...

Nature Research2019

Phonetic aware techniques for Speaker Verification

Subhadeep Dey

The goal of this thesis is to improve current state-of-the-art techniques in speaker verification (SV), typically based on â identity-vectorsâ (i-vectors) and deep neural network (DNN), by exploiting diverse (phonetic) information extracted using variou ...

EPFL2018

End-to-end text-dependent speaker verification using novel distance measures

Petr Motlicek, Subhadeep Dey

This paper explores novel ideas in building end-to-end deep neural network (DNN) based text-dependent speaker verification (SV) system. The baseline approach consists of mapping a variable length speech segment to a fixed dimensional speaker vector by esti ...

2018

Modeling and analysis of parts and devices of genetic regulation

Yves Berset

DNA encrypts the composition of the cellular material that is synthesized through transcription and translation. Never-theless, gene regulation mechanisms determine the final amount of transcribed and translated material. Transcription factors (TF) are a c ...

EPFL2018

Exploiting sequence information for text-dependent Speaker Verification

Petr Motlicek, Subhadeep Dey

Model-based approaches to Speaker Verification (SV), such as Joint Factor Analysis (JFA), i-vector and relevance Maximum-a-Posteriori (MAP), have shown to provide state-of-the-art performance for text-dependent systems with fixed phrases. The performance o ...

Ieee2017

What shapes eukaryotic transcriptional bursting?

Felix Naef, Damien Lionel Nicolas, Nicholas Edward Phillips

Isogenic cells in a common environment present a large degree of heterogeneity in gene expression. Part of this variability is attributed to transcriptional bursting: the stochastic activation and inactivation of promoters that leads to the discontinuous p ...

Royal Society of Chemistry2017

A practical qPCR approach to detect TERRA, the elusive telomeric repeat-containing RNA

Joachim Lingner, Marianna Feretzaki

Telomeres, the heterochromatic structures that protect the ends of the chromosomes, are transcribed into a class of long non-coding RNAs, telomeric repeat-containing RNAs (TERRA), whose transcriptional regulation and functions are not well understood. The ...

2017

Acoustic data-driven grapheme-to-phoneme conversion in the probabilistic lexical modeling framework

Mathew Magimai Doss, Marzieh Razavi, Ramya Rasipuram

One of the primary steps in building automatic speech recognition (ASR) and text-to-speech systems is the development of a phonemic lexicon that provides a mapping between each word and its pronunciation as a sequence of phonemes. Phoneme lexicons can be d ...

2016

On Structured Sparsity of Phonological Posteriors for Linguistic Parsing

Hervé Bourlard, Afsaneh Asaei

The speech signal conveys information on different time scales from short (20--40 ms) time scale or segmental, associated to phonological and phonetic information to long (150--250 ms) time scale or supra segmental, associated to syllabic and prosodic info ...

2016

Named Entity Resources - Overview and Outlook

Maud Ehrmann

Recognition of real-world entities is crucial for most NLP applications. Since its introduction some twenty years ago, named entity processing has undergone a significant evolution with, among others, the definition of new tasks (e.g. entity linking) and t ...

European Language Resources Association (ELRA)2016

On Compressibility of Neural Network phonological Features for Low Bit Rate Speech Coding

Hervé Bourlard, Afsaneh Asaei

Phonological features extracted by neural network have shown interesting potential for low bit rate speech vocoding. The span of phonological features is wider than the span of phonetic features, and thus fewer frames need to be transmitted. Moreover, the ...

2015

The Crystal Structures of Apo and cAMP-Bound GlxR from Corynebacterium glutamicum Reveal Structural and Dynamic Changes upon cAMP Binding in CRP/FNR Family Transcription Factors

Stewart Cole, Florence Pojer

The cyclic AMP-dependent transcriptional regulator GlxR from Corynebacterium glutamicum is a member of the super-family of CRP/FNR (cyclic AMP receptor protein/fumarate and nitrate reduction regulator) transcriptional regulators that play central roles in ...

Public Library of Science2014

An ancestral regulatory mechanism underlies Hoxd gene expression in both developing genitals and digits

Nicolas Lonfat

Coordinated expression of HoxD cluster genes is crucial for the emergence and patterning of both developing digits and external genitalia. As a shared evolutionary origin has been proposed for these secondary structures, which may have accompanied the tran ...

EPFL2013