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List of works by Michal Linial

A cell-based probabilistic approach unveils the concerted action of miRNAs

scientific article published on 02 December 2019

A functional hierarchical organization of the protein sequence space

scientific article

A large-scale evaluation of computational protein function prediction

scientific article

A predictor for toxin-like proteins exposes cell modulator candidates within viral genomes ⬇️

scientific article published on September 15, 2010

A robust method to detect structural and functional remote homologues.

scientific article

ARISTO: ontological classification of small molecules by electron ionization-mass spectrometry ⬇️

scientific article published on May 27, 2011

ASAP: a machine learning framework for local protein properties

scientific article

Acceleration of neuronal maturation of P19 cells by increasing culture density ⬇️

scientific article published on July 18, 1997

Advancing cell biology through proteomics in space and time (PROSPECTS).

scientific article published on 6 February 2012

Age-Induced Spatial Memory Deficits in Rats Are Correlated with Specific Brain Region Alterations in Microglial Morphology and Gene Expression

article

An expanded evaluation of protein function prediction methods shows an improvement in accuracy ⬇️

scientific article

Apoptotic cell thrombospondin-1 and heparin-binding domain lead to dendritic-cell phagocytic and tolerizing states

scientific article

Automatic detection of false annotations via binary property clustering

scientific article

BIRD: identifying cell doublets via biallelic expression from single cells

scientific article published on 01 July 2020

Bent DNA structures associated with several origins of replication are recognized by a unique enzyme from trypanosomatids ⬇️

scientific article published on July 25, 1988

Brain contains two forms of synaptic vesicle protein 2 ⬇️

scientific article published on March 15, 1993

Cellular and Molecular Biology of the Presynaptic Nerve Terminal ⬇️

scientific article published on January 1, 1991

ClanTox: a classifier of short animal toxins

scientific article

Codon usage is associated with the evolutionary age of genes in metazoan genomes

scientific article

Connect the dots: exposing hidden protein family connections from the entire sequence tree

scientific article published in August 2008

Conservation of the relative tRNA composition in healthy and cancerous tissues

scientific article published on 22 February 2012

Cooperativity within proximal phosphorylation sites is revealed from large-scale proteomics data

scientific article

Coordinated expression of cytoskeleton regulating genes in the accelerated neurite outgrowth of P19 embryonic carcinoma cells

scientific article published on 14 December 2007

De novo STXBP1 mutation in a child with developmental delay and spasticity reveals a major structural alteration in the interface with syntaxin 1A

scientific article published on 19 August 2020

Design of multispecific protein sequences using probabilistic graphical modeling.

scientific article published in February 2010

Direct interaction of target SNAREs with the Kv2.1 channel. Modal regulation of channel activation and inactivation gating

scientific article published on 13 June 2003

EVEREST: a collection of evolutionary conserved protein domains

scientific article

EVEREST: automatic identification and classification of protein domains in all protein sequences

scientific article

Effect of ladostigil treatment of aging rats on gene expression in four brain areas associated with regulation of memory

scientific article published on 29 July 2020

Efficient algorithms for accurate hierarchical clustering of huge datasets: tackling the entire protein space

scientific article published on July 2008

Enhancing identification of cancer types via lowly-expressed microRNAs

scientific article published on 3 April 2017

Entropy-driven partitioning of the hierarchical protein space

scientific article

Evolution of insect proteomes: insights into synapse organization and synaptic vesicle life cycle

scientific article published on 7 February 2008

Evolutional insights on uncharacterized SARS coronavirus genes

scientific article published on November 2004

Expanding cancer predisposition genes with ultra-rare cancer-exclusive human variations

scientific article published on 10 August 2020

Expansion of tandem repeats in sea anemone Nematostella vectensis proteome: A source for gene novelty?

scientific article

Exposing the co-adaptive potential of protein-protein interfaces through computational sequence design

scientific article

Expression and localization of muscarinic receptors in P19-derived neurons ⬇️

scientific article published on February 1, 1998

Extended fertility and longevity: the genetic and epigenetic link

scientific article published on 18 March 2015

Fishing with (Proto)Net-a principled approach to protein target selection

scientific article

Functional annotation prediction: all for one and one for all.

scientific article published on 2 May 2006

Functional grouping based on signatures in protein termini

scientific article published in June 2006

Functional inference by ProtoNet family tree: the uncharacterized proteome of Daphnia pulex

scientific article

Gene overlapping and size constraints in the viral world

scientific article published on 21 May 2016

Generative probabilistic models for protein–protein interaction networks—the biclique perspective ⬇️

scientific article published on July 1, 2011

Genomic Characteristics of Myeloproliferative Neoplasms in Patients Exposed to Ionizing Radiation following the Chernobyl Nuclear Accident

article

Giant Viruses-Big Surprises.

scientific article

Global considerations in hierarchical clustering reveal meaningful patterns in data

scientific article

Highly sensitive ELISA-based assay for quantifying protein levels in neuronal cultures ⬇️

scientific article published on June 1, 1998

Human genes escaping X-inactivation revealed by single cell expression data

article

Hydrophobized dextran-spermine conjugate as potential vector for in vitro gene transfection

scientific article

ISCB Ebola Award for Important Future Research on the Computational Biology of Ebola Virus

scientific article (publication date: 29 January 2015)

ISCB Ebola Award for Important Future Research on the Computational Biology of Ebola Virus

scientific article

ISMB 2008 Toronto

scientific article published in June 2008

Implicit Biology in Peptide Spectral Libraries ⬇️

scientific article published on August 31, 2012

Is GAS1 a co-receptor for the GDNF family of ligands?

scientific article

Message from the ISCB: ISCB Ebola award for important future research on the computational biology of Ebola virus

scientific article published on 2 February 2015

MiRror: a combinatorial analysis web tool for ensembles of microRNAs and their targets

scientific article

NeuroPID: a classifier of neuropeptide precursors

scientific article

NeuroPID: a predictor for identifying neuropeptide precursors from metazoan proteomes

scientific article published on 13 December 2013

Novel families of toxin-like peptides in insects and mammals: a computational approach.

scientific article

Novel unsupervised feature filtering of biological data

scientific article

Overlooked Short Toxin-Like Proteins: A Shortcut to Drug Design.

scientific article published on 29 October 2017

PANDORA: analysis of protein and peptide sets through the hierarchical integration of annotations

scientific article published on 5 May 2010

PANDORA: keyword-based analysis of protein sets by integration of annotation sources

scientific article published on October 2003

PROCEED: A proteomic method for analysing plasma membrane proteins in living mammalian cells

scientific article published in October 2003

PWAS: proteome-wide association study-linking genes and phenotypes by functional variation in proteins

scientific article published on 14 July 2020

Pardaxin stimulation of phospholipases A2 and their involvement in exocytosis in PC-12 cells

scientific journal article

Paving the future: finding suitable ISMB venues

scientific article

Polysaccharide-oligoamine based conjugates for gene delivery

scientific article

Prenatal stress diminishes gender differences in behavior and in expression of hippocampal synaptic genes and proteins in rats

scientific article

ProFET: Feature engineering captures high-level protein functions

scientific article published on 30 June 2015

ProTarget: automatic prediction of protein structure novelty

scientific article

ProTeus: identifying signatures in protein termini

scientific article

Protection of pancreatic beta-cells from various stress conditions is mediated by DJ-1

scientific article

Protein function annotation by homology-based inference

scientific article (publication date: 2 February 2009)

ProtoBee: hierarchical classification and annotation of the honey bee proteome

scientific article

ProtoBug: functional families from the complete proteomes of insects

scientific article published on 24 April 2015

ProtoNet 4.0: a hierarchical classification of one million protein sequences

scientific article

ProtoNet 6.0: organizing 10 million protein sequences in a compact hierarchical family tree ⬇️

scientific article published on November 25, 2011

ProtoNet: charting the expanding universe of protein sequences ⬇️

scientific article published on April 1, 2013

ProtoNet: hierarchical classification of the protein space

scientific article published on January 2003

Quantifying gene selection in cancer through protein functional alteration bias

scientific article published on 01 July 2019

Quaternary ammonium polysaccharides for gene delivery

scientific article published on September 2005

Recovering key biological constituents through sparse representation of gene expression

scientific article published on 21 January 2011

SNARE Proteins‐Why So Many, Why So Few? ⬇️

scientific article published on November 1, 1997

SPRINT: side-chain prediction inference toolbox for multistate protein design.

scientific article published on 4 August 2010

Serine substitutions are linked to codon usage and differ for variable and conserved protein regions

scientific article published on 21 November 2019

Sharing of antigenic epitopes between synaptophysin and granulophysin

scientific article published on May 1, 1992

Short toxin-like proteins abound in Cnidaria genomes

scientific article

Short toxin-like proteins attack the defense line of innate immunity

scientific article published on 23 July 2013

Significantly Improved COVID-19 Outcomes in Countries with Higher BCG Vaccination Coverage: A Multivariable Analysis

scientific article published on 29 April 2020

Significantly Improved COVID-19 Outcomes in Countries with Higher BCG Vaccination Coverage: A Multivariable Analysis

scientific article published on 11 July 2020

Small RNA sequences derived from pre-microRNAs in the supraspliceosome.

scientific article published in November 2018

Speed controls in translating secretory proteins in eukaryotes--an evolutionary perspective

scientific article

Spliceosome-Associated microRNAs Signify Breast Cancer Cells and Portray Potential Novel Nuclear Targets

scientific article published on 30 October 2020

Structure and chromosomal localization of the mammalian agrin gene ⬇️

scientific article published on September 1, 1992

Substantial batch effects in TCGA exome sequences undermine pan-cancer analysis of germline variants

scientific article published on 07 August 2019

Susceptibility of the human pathways graphs to fragmentation by small sets of microRNAs ⬇️

scientific article published on February 10, 2012

Synaptic proteins as multi-sensor devices of neurotransmission

scientific article published on 30 October 2006

Targeted in situ cross-linking mass spectrometry and integrative modeling reveal the architectures of three proteins from SARS-CoV-2

scholarly article by Moriya Slavin published in August 2021

The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens

scientific article published on 19 November 2019

The FABRIC Cancer Portal: A Ranked Catalogue of Gene Selection in Tumors over the Human Coding Genome

scientific article published on 04 December 2020

The SARS-CoV-2 Exerts a Distinctive Strategy for Interacting with the ACE2 Human Receptor

scientific article published on 30 April 2020

The advantage of functional prediction based on clustering of yeast genes and its correlation with non-sequence based classifications

scientific article published on January 2002

The automated function prediction SIG looks back at 2013 and prepares for 2014.

scientific article published on 3 March 2014

The complete peptide dictionary – A meta‐proteomics resource ⬇️

scientific article published on December 1, 2010

The language of proteins: NLP, machine learning & protein sequences

publication published on 25 March 2021

The secrets of a functional synapse--from a computational and experimental viewpoint

scientific article published on 20 March 2006

Toward a combinatorial nature of microRNA regulation in human cells

scientific article

Trends in genome dynamics among major orders of insects revealed through variations in protein families

scientific article published on 7 August 2015

UFFizi: a generic platform for ranking informative features

scientific article

Unsupervised feature selection under perturbations: meeting the challenges of biological data

scientific article

Viral adaptation to host: a proteome-based analysis of codon usage and amino acid preferences

scientific article published on 13 October 2009

Viral proteins acquired from a host converge to simplified domain architectures

scientific article (publication date: February 2012)

Voltage‐Dependent Interaction Between the Muscarinic ACh Receptor and Proteins of the Exocytic Machinery ⬇️

scientific article published on October 15, 1997

Working Together: Combinatorial Regulation by microRNAs ⬇️

scientific article published on January 1, 2013

miRror-Suite: decoding coordinated regulation by microRNAs

scientific article published on 6 June 2014

miRror2.0: a platform for assessing the joint action of microRNAs in cell regulation

scientific article published in December 2013

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