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Michal Linial

Research Profile

Chemicals & Drugs

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Genes & Molecular Sequences

Amino Acid Sequences

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TOP 3
Nadav Rappoport; Nathan Linial; Michal Linial
ProtoNet: charting the expanding universe of protein sequences.
Nadav Rappoport; Michal Linial
Functional inference by ProtoNet family tree: the uncharacterized proteome of Daphnia pulex.
Yitzhak Friedman; Ohad Balaga; Michal Linial
Working together: combinatorial regulation by microRNAs.

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All Publications

2013: Nadav Rappoport; Nathan Linial; Michal Linial
ProtoNet: charting the expanding universe of protein sequences.
Nature biotechnology 2013;31(4):290-2.
2013: Nadav Rappoport; Michal Linial
Functional inference by ProtoNet family tree: the uncharacterized proteome of Daphnia pulex.
BMC bioinformatics 2013;14 Suppl 3():S11.
2013: Yitzhak Friedman; Ohad Balaga; Michal Linial
Working together: combinatorial regulation by microRNAs.
Advances in experimental medicine and biology 2013;774():317-37.
2012: Yitshak Tirosh; Manor Askenazi; Itai Linial; Michal Linial
Short toxin-like proteins abound in Cnidaria genomes.
Toxins 2012;4(11):1367-84.
2012: Ohad Balaga; Yitzhak Friedman; Michal Linial
Toward a combinatorial nature of microRNA regulation in human cells.
Nucleic acids research 2012;40(19):9404-16.
2012: Burkhard Rost; Reinhard Schneider; Terry Gaasterland; Paul Horton; Thomas Lengauer; Michal Linial; Scott Markel; B J Morrison McKay; Janet Kelso
Paving the future: finding suitable ISMB venues.
Bioinformatics (Oxford, England) 2012;28(19):2556-9.
2012: Manor Askenazi; Michal Linial
Implicit biology in peptide spectral libraries.
Analytical chemistry 2012;84(18):7919-25.
2012: Shelly Mahlab; Tamir Tuller; Michal Linial
Conservation of the relative tRNA composition in healthy and cancerous tissues.
RNA (New York, N.Y.) 2012;18(4):640-52.
2012: Guy Naamati; Ohad Balaga; Yitzhak Friedman; Michal Linial
Susceptibility of the human pathways graphs to fragmentation by small sets of microRNAs.
Bioinformatics (Oxford, England) 2012;28(7):983-90.
2012: Angus I Lamond; Michal Linial; Alexander Makarov; Ruedi Aebersold; Jens S Andersen; Wolfgang Baumeister; F Ulrich Hartl; Stevan Horning; Carol V Robinson; Luis Serrano; Mathias Uhlen; Ole Vorm; anne katrin werenskiold; Matthias Mann
Advancing cell biology through proteomics in space and time (PROSPECTS).
Molecular & cellular proteomics : MCP 2012;11(3):O112.017731.
2012: Nadav Rappoport; Michal Linial
Viral proteins acquired from a host converge to simplified domain architectures.
PLoS computational biology 2012;8(2):e1002364.
2011: Ya'arit Nachum Biala; Yoel Bogoch; Michal Linial; Corina Bejar; Marta Weinstock
Prenatal stress diminishes gender differences in behavior and in expression of hippocampal synaptic genes and proteins in rats.
Hippocampus 2011;21(10):1114-25.
2011: Regev Schweiger; Michal Linial; Nathan Linial
Generative probabilistic models for protein-protein interaction networks--the biclique perspective.
Bioinformatics (Oxford, England) 2011;27(13):i142-8.
2011: Manor Askenazi; Michal Linial
ARISTO: ontological classification of small molecules by electron ionization-mass spectrometry.
Nucleic acids research 2011;39(Web Server issue):W505-10.
2011: Yosef Prat; Menachem Fromer; Nathan Linial; Michal Linial
Recovering key biological constituents through sparse representation of gene expression.
Bioinformatics (Oxford, England) 2011;27(5):655-61.
2010: Manor Askenazi; Jarrod A Marto; Michal Linial
The complete peptide dictionary--a meta-proteomics resource.
Proteomics 2010;10(23):4306-10.
2010: Menachem Fromer; Chen Yanover; Amir Harel; Ori Shachar; Yair Weiss; Michal Linial
SPRINT: side-chain prediction inference toolbox for multistate protein design.
Bioinformatics (Oxford, England) 2010;26(19):2466-7.
2010: Guy Naamati; Manor Askenazi; Michal Linial
A predictor for toxin-like proteins exposes cell modulator candidates within viral genomes.
Bioinformatics (Oxford, England) 2010;26(18):i482-8.
2010: Menachem Fromer; Michal Linial
Exposing the co-adaptive potential of protein-protein interfaces through computational sequence design.
Bioinformatics (Oxford, England) 2010;26(18):2266-72.
2010: Alex Inberg; Michal Linial
Protection of pancreatic beta-cells from various stress conditions is mediated by DJ-1.
The Journal of biological chemistry 2010;285(33):25686-98.
2010: Yitzhak Friedman; Guy Naamati; Michal Linial
MiRror: a combinatorial analysis web tool for ensembles of microRNAs and their targets.
Bioinformatics (Oxford, England) 2010;26(15):1920-1.
2010: Nadav Rappoport; Menachem Fromer; Regev Schweiger; Michal Linial
PANDORA: analysis of protein and peptide sets through the hierarchical integration of annotations.
Nucleic acids research 2010;38(Web Server issue):W84-9.
2010: Menachem Fromer; Chen Yanover; Michal Linial
Design of multispecific protein sequences using probabilistic graphical modeling.
Proteins 2010;78(3):530-47.
2010: Assaf Gottlieb; Roy Varshavsky; Michal Linial; David Horn
UFFizi: a generic platform for ranking informative features.
BMC bioinformatics 2010;11():300.
2010: Regev Schweiger; Michal Linial
Cooperativity within proximal phosphorylation sites is revealed from large-scale proteomics data.
Biology direct 2010;5():6.
2009: Guy Naamati; Manor Askenazi; Michal Linial
ClanTox: a classifier of short animal toxins.
Nucleic acids research 2009;37(Web Server issue):W363-8.
2009: Guy Naamati; Menachem Fromer; Michal Linial
Expansion of tandem repeats in sea anemone Nematostella vectensis proteome: A source for gene novelty?
BMC genomics 2009;10():593.
2009: Yosef Prat; Menachem Fromer; Nathan Linial; Michal Linial
Codon usage is associated with the evolutionary age of genes in metazoan genomes.
BMC evolutionary biology 2009;9():285.
2009: Iris Bahir; Menachem Fromer; Yosef Prat; Michal Linial
Viral adaptation to host: a proteome-based analysis of codon usage and amino acid preferences.
Molecular systems biology 2009;5():311.
2009: Yaniv Loewenstein; Domenico Raimondo; Oliver C Redfern; James Watson; Dmitrij Frishman; Michal Linial; Christine Orengo; Janet Thornton; Anna Tramontano
Protein function annotation by homology-based inference.
Genome biology 2009;10(2):207.
2008: Yaniv Loewenstein; Michal Linial
Connect the dots: exposing hidden protein family connections from the entire sequence tree.
Bioinformatics (Oxford, England) 2008;24(16):i193-9.
2008: Yaniv Loewenstein; Elon Portugaly; Menachem Fromer; Michal Linial
Efficient algorithms for accurate hierarchical clustering of huge datasets: tackling the entire protein space.
Bioinformatics (Oxford, England) 2008;24(13):i41-9.
2008: Michal Linial; Jill P Mesirov; B J Morrison McKay; Burkhard Rost
ISMB 2008 Toronto.
PLoS computational biology 2008;4(6):e1000094.
2008: Yuval Gielchinsky; Yoel Bogoch; Gideon Rechavi; Jasmine Jacob-Hirsch; Ninette Amariglio; David Shveiky; Michal Linial; Neri Laufer
Gene expression in women conceiving spontaneously over the age of 45 years.
Fertility and sterility 2008;89(6):1641-50.
2008: Yoel Bogoch; Michal Linial
Coordinated expression of cytoskeleton regulating genes in the accelerated neurite outgrowth of P19 embryonic carcinoma cells.
Experimental cell research 2008;314(4):677-90.
2008: Roy Varshavsky; David Horn; Michal Linial
Global considerations in hierarchical clustering reveal meaningful patterns in data.
PloS one 2008;3(5):e2247.
2008: Chava Yanay; Noa Morpurgo; Michal Linial
Evolution of insect proteomes: insights into synapse organization and synaptic vesicle life cycle.
Genome biology 2008;9(2):R27.
2007: Roy Varshavsky; Assaf Gottlieb; David Horn; Michal Linial
Unsupervised feature selection under perturbations: meeting the challenges of biological data.
Bioinformatics (Oxford, England) 2007;23(24):3343-9.
2007: Noam Kaplan; Noa Morpurgo; Michal Linial
Novel families of toxin-like peptides in insects and mammals: a computational approach.
Journal of molecular biology 2007;369(2):553-66.
2007: Y Bogoch; Y N Biala; Michal Linial; Marta Weinstock
Anxiety induced by prenatal stress is associated with suppression of hippocampal genes involved in synaptic function.
Journal of neurochemistry 2007;101(4):1018-30.
2007: Alex Inberg; Yoel Bogoch; Yaniv Bledi; Michal Linial
Cellular processes underlying maturation of P19 neurons: Changes in protein folding regimen and cytoskeleton organization.
Proteomics 2007;7(6):910-20.
2007: Elon Portugaly; Nathan Linial; Michal Linial
EVEREST: a collection of evolutionary conserved protein domains.
Nucleic acids research 2007;35(Database issue):D241-6.
2006: Alon Krispin; Yaniv Bledi; Mizhir Atallah; Uriel Trahtemberg; Inna Verbovetski; Efrat Nahari; Orly Zelig; Michal Linial; Dror Mevorach
Apoptotic cell thrombospondin-1 and heparin-binding domain lead to dendritic-cell phagocytic and tolerizing states.
Blood 2006;108(10):3580-9.
2006: Noam Kaplan; Michal Linial
ProtoBee: hierarchical classification and annotation of the honey bee proteome.
Genome research 2006;16(11):1431-8.
2006: Roy Varshavsky; Assaf Gottlieb; Michal Linial; David Horn
Novel unsupervised feature filtering of biological data.
Bioinformatics (Oxford, England) 2006;22(14):e507-13.
2006: Ori Sasson; Noam Kaplan; Michal Linial
Functional annotation prediction: all for one and one for all.
Protein science : a publication of the Protein Society 2006;15(6):1557-62.
2006: Iris Bahir; Michal Linial
Functional grouping based on signatures in protein termini.
Proteins 2006;63(4):996-1004.
2006: Ora Schueler-Furman; Eitan Glick; José Segovia; Michal Linial
Is GAS1 a co-receptor for the GDNF family of ligands?
Trends in pharmacological sciences 2006;27(2):72-7.
2006: Guy Brachya; Chava Yanay; Michal Linial
Synaptic proteins as multi-sensor devices of neurotransmission.
BMC neuroscience 2006;7 Suppl 1():S4.
2006: Elon Portugaly; Amir Harel; Nathan Linial; Michal Linial
EVEREST: automatic identification and classification of protein domains in all protein sequences.
BMC bioinformatics 2006;7():277.
2006: Michal Linial
The secrets of a functional synapse--from a computational and experimental viewpoint.
BMC bioinformatics 2006;7 Suppl 1():S6.
2005: Ira Yudovin-Farber; Chava Yanay; Tony Azzam; Michal Linial; Abraham J Domb
Quaternary ammonium polysaccharides for gene delivery.
Bioconjugate chemistry 2005;16(5):1196-203.
2005: Ori Sasson; Michal Linial
ProTarget: automatic prediction of protein structure novelty.
Nucleic acids research 2005;33(Web Server issue):W81-4.
2005: Iris Bahir; Michal Linial
ProTeus: identifying signatures in protein termini.
Nucleic acids research 2005;33(Web Server issue):W277-80.
2005: Tali Sadka; Michal Linial
Families of membranous proteins can be characterized by the amino acid composition of their transmembrane domains.
Bioinformatics (Oxford, England) 2005;21 Suppl 1():i378-86.
2005: Ilona Kifer; Ori Sasson; Michal Linial
Predicting fold novelty based on ProtoNet hierarchical classification.
Bioinformatics (Oxford, England) 2005;21(7):1020-7.
2005: Noam Kaplan; Michal Linial
Automatic detection of false annotations via binary property clustering.
BMC bioinformatics 2005;6():46.
2005: Noam Kaplan; Ori Sasson; Uri Inbar; Moriah Friedlich; Menachem Fromer; Hillel Fleischer; Elon Portugaly; Nathan Linial; Michal Linial
ProtoNet 4.0: a hierarchical classification of one million protein sequences.
Nucleic acids research 2005;33(Database issue):D216-8.
2004: Ori Shachar; Michal Linial
A robust method to detect structural and functional remote homologues.
Proteins 2004;57(3):531-8.
2004: Alex Inberg; Michal Linial
Evolutional insights on uncharacterized SARS coronavirus genes.
FEBS letters 2004;577(1-2):159-64.
2004: Tony Azzam; Hagit Eliyahu; Arik Makovitzki; Michal Linial; Abraham J Domb
Hydrophobized dextran-spermine conjugate as potential vector for in vitro gene transfection.
Journal of controlled release : official journal of the Controlled Release Society 2004;96(2):309-23.
2004: Noam Kaplan; Moriah Friedlich; Menachem Fromer; Michal Linial
A functional hierarchical organization of the protein sequence space.
BMC bioinformatics 2004;5():196.
2003: Yaniv Bledi; Alex Inberg; Michal Linial
PROCEED: A proteomic method for analysing plasma membrane proteins in living mammalian cells.
Briefings in functional genomics & proteomics 2003;2(3):254-65.
2003: Noam Kaplan; Avishay Vaaknin; Michal Linial
PANDORA: keyword-based analysis of protein sets by integration of annotation sources.
Nucleic acids research 2003;31(19):5617-26.
2003: Izhak M. Michaelevski; Dodo Chikvashvili; Sharon Tsuk; Dafna Singer-Lahat; Youhou Kang; Michal Linial; Herbert Y Gaisano; Oded Fili; Ilana Lotan
Direct interaction of target SNAREs with the Kv2.1 channel. Modal regulation of channel activation and inactivation gating.
The Journal of biological chemistry 2003;278(36):34320-30.
2003: Michal Linial
How incorrect annotations evolve--the case of short ORFs.
Trends in biotechnology 2003;21(7):298-300.
2003: Michal Linial
Fishing with (Proto)Net-a principled approach to protein target selection.
Comparative and functional genomics 2003;4(5):542-8.
2003: Ori Sasson; Avishay Vaaknin; Hillel Fleischer; Elon Portugaly; Yonatan Bilu; Nathan Linial; Michal Linial
ProtoNet: hierarchical classification of the protein space.
Nucleic acids research 2003;31(1):348-52.
2002: Elon Portugaly; Ilona Kifer; Michal Linial
Selecting targets for structural determination by navigating in a graph of protein families.
Bioinformatics (Oxford, England) 2002;18(7):899-907.
2002: Eugenia Bloch-Shilderman; Saleh Abu-Raya; Victoria Trembovler; Hassia Boschwitz; Arie Gruzman; Michal Linial; Philip Lazarovici
Pardaxin stimulation of phospholipases A2 and their involvement in exocytosis in PC-12 cells.
The Journal of pharmacology and experimental therapeutics 2002;301(3):953-62.
2002: Tony Azzam; Hagit Eliyahu; Lior Shapira; Michal Linial; Yechezkel Barenholz; Abraham J Domb
Polysaccharide-oligoamine based conjugates for gene delivery.
Journal of medicinal chemistry 2002;45(9):1817-24.
2002: Ori Sasson; Nathan Linial; Michal Linial
The metric space of proteins-comparative study of clustering algorithms.
Bioinformatics (Oxford, England) 2002;18 Suppl 1():S14-21.
2002: Yonatan Bilu; Michal Linial
The advantage of functional prediction based on clustering of yeast genes and its correlation with non-sequence based classifications.
Journal of computational biology : a journal of computational molecular cell biology 2002;9(2):193-210.
2001: Oded Fili; Izhak M. Michaelevski; Yaniv Bledi; Dodo Chikvashvili; Dafna Singer-Lahat; H Boshwitz; Michal Linial; Ilana Lotan
Direct interaction of a brain voltage-gated K+ channel with syntaxin 1A: functional impact on channel gating.
The Journal of neuroscience : the official journal of the Society for Neuroscience 2001;21(6):1964-74.
2001: Eugenia Bloch-Shilderman; Hao Jiang; Saleh Abu-Raya; Michal Linial; Philip Lazarovici
Involvement of extracellular signal-regulated kinase (ERK) in pardaxin-induced dopamine release from PC12 cells.
The Journal of pharmacology and experimental therapeutics 2001;296(3):704-11.
2000: Yaniv Bledi; Abraham J Domb; Michal Linial
Culturing neuronal cells on surfaces coated by a novel polyethyleneimine-based polymer.
Brain research. Brain research protocols 2000;5(3):282-9.
2000: Elon Portugaly; Michal Linial
Estimating the probability for a protein to have a new fold: A statistical computational model.
Proceedings of the National Academy of Sciences of the United States of America 2000;97(10):5161-6.
2000: Nir Friedman; Michal Linial; Iftach Nachman; Dana Pe'er
Using Bayesian networks to analyze expression data.
Journal of computational biology : a journal of computational molecular cell biology 2000;7(3-4):601-20.
2000: Michal Linial; Golan Yona
Methodologies for target selection in structural genomics.
Progress in biophysics and molecular biology 2000;73(5):297-320.
2000: Golan Yona; Nathan Linial; Michal Linial
ProtoMap: automatic classification of protein sequences and hierarchy of protein families.
Nucleic acids research 2000;28(1):49-55.
1999: Golan Yona; Nathan Linial; Michal Linial
ProtoMap: automatic classification of protein sequences, a hierarchy of protein families, and local maps of the protein space.
Proteins 1999;37(3):360-78.
1999: N Ilouz; L Branski; Julia Parnis; Hanna Parnas; Michal Linial
Depolarization affects the binding properties of muscarinic acetylcholine receptors and their interaction with proteins of the exocytic apparatus.
The Journal of biological chemistry 1999;274(41):29519-28.
1999: G Peleg; Aaron Lewis; Michal Linial; L M Loew
Nonlinear optical measurement of membrane potential around single molecules at selected cellular sites.
Proceedings of the National Academy of Sciences of the United States of America 1999;96(12):6700-4.
1998: Dana Baram; Michal Linial; Yoseph A Mekori; Ronit Sagi-Eisenberg
Ca2+-dependent exocytosis in mast cells is stimulated by the Ca2+ sensor, synaptotagmin I.
Journal of immunology (Baltimore, Md. : 1950) 1998;161(10):5120-3.
1998: D Parnas; Michal Linial
Highly sensitive ELISA-based assay for quantifying protein levels in neuronal cultures.
Brain research. Brain research protocols 1998;2(4):333-8.
1998: D Parnas; E Heldman; L Branski; Naomi Feinstein; Michal Linial
Expression and localization of muscarinic receptors in P19-derived neurons.
Journal of molecular neuroscience : MN 1998;10(1):17-29.
1998: Golan Yona; Nathan Linial; Naftali Tishby; Michal Linial
A map of the protein space--an automatic hierarchical classification of all protein sequences.
Proceedings / ... International Conference on Intelligent Systems for Molecular Biology ; ISMB. International Conference on Intelligent Systems for Molecular Biology 1998;6():212-21.
1997: Michal Linial
SNARE proteins--why so many, why so few?
Journal of neurochemistry 1997;69(5):1781-92.
1997: Michal Linial; N Ilouz; Hanna Parnas
Voltage-dependent interaction between the muscarinic ACh receptor and proteins of the exocytic machinery.
The Journal of physiology 1997;504 ( Pt 2)():251-8.
1997: D Parnas; Michal Linial
Acceleration of neuronal maturation of P19 cells by increasing culture density.
Brain research. Developmental brain research 1997;101(1-2):115-24.
1997: Moran Benhar; H Boschwitz; Michal Linial
Differential expression pattern of Rab-GDI isoforms during the parotid gland secretion cycle.
Experimental cell research 1997;233(1):207-15.
1997: Michal Linial; Nathan Linial; Naftali Tishby; Golan Yona
Global self-organization of all known protein sequences reveals inherent biological signatures.
Journal of molecular biology 1997;268(2):539-56.
1997: O Levius; Naomi Feinstein; Michal Linial
Expression and localization of synaptotagmin I in rat parotid gland.
European journal of cell biology 1997;73(1):81-92.
1997: D Parnas; Michal Linial
Culture density regulates both the cholinergic phenotype and the expression of the CNTF receptor in P19 neurons.
Journal of molecular neuroscience : MN 1997;8(2):115-30.
1996: Michal Linial; D Parnas
Deciphering neuronal secretion: tools of the trade.
Biochimica et biophysica acta 1996;1286(2):117-52.
1995: D Parnas; Michal Linial
Cholinergic properties of neurons differentiated from an embryonal carcinoma cell-line (P19).
International journal of developmental neuroscience : the official journal of the International Society for Developmental Neuroscience 1995;13(7):767-81.
1995: Michal Linial
Bacterial neurotoxins--a thousand years later.
Israel journal of medical sciences 1995;31(10):591-5.
1995: Michal Linial; N Ilouz; Naomi Feinstein
alpha-latrotoxin is a potent inducer of neurotransmitter release in Torpedo electric organ--functional and morphological characterization.
The European journal of neuroscience 1995;7(4):742-52.
1995: U Kistner; Craig C Garner; Michal Linial
Nucleotide binding by the synapse associated protein SAP90.
FEBS letters 1995;359(2-3):159-63.
1995: Michal Linial; O Levius; N Ilouz; D Parnas
The effect of calcium levels on synaptic proteins. A study on VAT-1 from Torpedo.
Journal of physiology, Paris 1995;89(2):103-12.
1994: Michal Linial
Proline clustering in proteins from synaptic vesicles.
Neuroreport 1994;5(16):2009-15.
1993: O Levius; Michal Linial
VAT-1 from Torpedo synaptic vesicles is a calcium binding protein: a study in bacterial expression systems.
Cellular and molecular neurobiology 1993;13(5):483-92.
1993: Michal Linial
VAT-1 from Torpedo electric organ forms a high-molecular-mass protein complex within the synaptic vesicle membrane.
European journal of biochemistry / FEBS 1993;216(1):189-97.
1993: Michal Linial; O Levius
The protein VAT-1 from Torpedo electric organ exhibits an ATPase activity.
Neuroscience letters 1993;152(1-2):155-7.
1993: Michal Linial; O Levius
VAT-1 from Torpedo is a membranous homologue of zeta crystallin.
FEBS letters 1993;315(1):91-4.
1988: Michal Linial; J Shlomai
Bent DNA structures associated with several origins of replication are recognized by a unique enzyme from trypanosomatids.
Nucleic acids research 1988;16(14A):6477-92.
1988: Michal Linial; J Shlomai
A unique endonuclease from Crithidia fasciculata which recognizes a bend in the DNA helix. Specificity of the cleavage reaction.
The Journal of biological chemistry 1988;263(1):290-7.
1987: Michal Linial; J Shlomai
Sequence-directed bent DNA helix is the specific binding site for Crithidia fasciculata nicking enzyme.
Proceedings of the National Academy of Sciences of the United States of America 1987;84(23):8205-9.
1987: Michal Linial; J Shlomai
The sequence-directed bent structure in kinetoplast DNA is recognized by an enzyme from Crithidia fasciculata.
The Journal of biological chemistry 1987;262(31):15194-201.
1986: J Shlomai; Michal Linial
A nicking enzyme from trypanosomatids which specifically affects the topological linking of duplex DNA circles. Purification and characterization.
The Journal of biological chemistry 1986;261(34):16219-25.