Hanah Margalit | |
---|---|
Alma mater | Hebrew University of Jerusalem (PhD) |
Awards | ISCB Fellow (2018) [1] Landau Prize in Systems Biology (2008) Rothschild Prize in Computational Biology [2] |
Scientific career | |
Fields | Bioinformatics Computational Biology Systems Biology [3] |
Institutions | Hebrew University of Jerusalem National Institutes of Health |
Doctoral advisor | Norman Grover |
Other academic advisors | Charles DeLisi |
Website | margalit |
Hanah Margalit is a Professor in the faculty of medicine at the Hebrew University of Jerusalem. [4] [5] Her research combines bioinformatics, computational biology and systems biology, specifically in the fields of gene regulation in bacteria and eukaryotes. [3]
Margalit earned her B.Sc degree (in Mathematics and Biology, 1974) and MSc degree (in Genetics, with distinction, 1977) from the Hebrew University of Jerusalem. [4] In 1985, she completed her PhD in computational molecular biology, under the supervision of Norman Grover, the Hebrew University of Jerusalem.[ citation needed ]
Margalit completed postdoctoral research at the National Institutes of Health (NIH) in the laboratory of mathematical biology under the supervision of Charles DeLisi, where she developed the first computational algorithm to predict antigenic peptides recognized by immune cells. [6] In 1989, she returned to Israel and established her independent research group at the Faculty of Medicine, the Hebrew University of Jerusalem.
Her early research included development of computational algorithms for predicting binding of antigenic peptides to MHC molecules, [7] computational models of protein-DNA binding preferences, [8] [9] also in collaboration with Nir Friedman, [10] identification of domain pairs as the building blocks of protein-protein interaction networks, [11] analysis of the integrated network of protein-protein and protein-DNA interactions [12] (in collaboration with Uri Alon), as well as computational models for predicting small regulatory RNA molecules in bacteria, [13] which were verified experimentally in collaboration with Shoshy Altuvia and Gerhart Wagner.
More recently, Margalit's lab studied the dynamics of regulation by small RNAs [14] (in collaboration with Ofer Biham), and computationally predicted that there are viral microRNA molecules that repress the human immune system, a mechanism that was experimentally validated in collaboration with Ofer Mandelboim. [15] Since 2012, Margalit has combined experimental and computational research for studying small RNA-target interactions in bacteria. [16]
Margalit was one of pioneering researchers of Bioinformatics and Computational Biology in Israel and worldwide. At the Hebrew University she co-founded the "Computer Science and Life Sciences" program in Bioinformatics and Computational Biology (in 1999) and the graduate "Genomics and Bioinformatics" program (in 2000). In 2002 she was elected as the first president of the Israeli Society of Bioinformatics and Computational Biology (2002-2004). Margalit has mentored over 50 graduate students, many of them holding faculty positions in bioinformatics in Israel and abroad. [17]
In 2008 she was awarded the Michael Landau prize in Systems Biology. [18] In 2018, Margalit was elected a fellow of the International Society for Computational Biology (ISCB) for outstanding contributions to the fields of computational biology and bioinformatics. [1] In 2020, Prof. Margalit was awarded the Rothschild Prize in Computational Biology. [19]
Margalit is married to Avi and a mother of three children.[ citation needed ]
Michael Levitt, is a South African-born biophysicist and a professor of structural biology at Stanford University, a position he has held since 1987. Levitt received the 2013 Nobel Prize in Chemistry, together with Martin Karplus and Arieh Warshel, for "the development of multiscale models for complex chemical systems". In 2018, Levitt was a founding co-editor of the Annual Review of Biomedical Data Science.
Dame Janet Maureen Thornton, is a senior scientist and director emeritus at the European Bioinformatics Institute (EBI), part of the European Molecular Biology Laboratory (EMBL). She is one of the world's leading researchers in structural bioinformatics, using computational methods to understand protein structure and function. She served as director of the EBI from October 2001 to June 2015, and played a key role in ELIXIR.
Søren Brunak is a Danish biological and physical scientist working in bioinformatics, systems biology, and medical informatics. He is a professor of Disease Systems Biology at the University of Copenhagen and professor of bioinformatics at the Technical University of Denmark. As Research Director at the Novo Nordisk Foundation Center for Protein Research at the University of Copenhagen Medical School, he leads a research effort where molecular-level systems biology data are combined with phenotypic data from the healthcare sector, such as electronic patient records, registry information, and biobank questionnaires. A major aim is to understand the network biology basis for time-ordered comorbidities and discriminate between treatment-related disease correlations and other comorbidities in disease trajectories. Søren Brunak also holds a position as a Medical Informatics Officer at Rigshospitalet, the Capital Region of Denmark.
Anders Krogh is a bioinformatician at the University of Copenhagen, where he leads the university's bioinformatics center. He is known for his pioneering work on the use of hidden Markov models in bioinformatics, and is co-author of a widely used textbook in bioinformatics. In addition, he also co-authored one of the early textbooks on neural networks. His current research interests include promoter analysis, non-coding RNA, gene prediction and protein structure prediction.
Bacterial small RNAs (bsRNA) are small RNAs produced by bacteria; they are 50- to 500-nucleotide non-coding RNA molecules, highly structured and containing several stem-loops. Numerous sRNAs have been identified using both computational analysis and laboratory-based techniques such as Northern blotting, microarrays and RNA-Seq in a number of bacterial species including Escherichia coli, the model pathogen Salmonella, the nitrogen-fixing alphaproteobacterium Sinorhizobium meliloti, marine cyanobacteria, Francisella tularensis, Streptococcus pyogenes, the pathogen Staphylococcus aureus, and the plant pathogen Xanthomonas oryzae pathovar oryzae. Bacterial sRNAs affect how genes are expressed within bacterial cells via interaction with mRNA or protein, and thus can affect a variety of bacterial functions like metabolism, virulence, environmental stress response, and structure.
Sean Roberts Eddy is Professor of Molecular & Cellular Biology and of Applied Mathematics at Harvard University. Previously he was based at the Janelia Research Campus from 2006 to 2015 in Virginia. His research interests are in bioinformatics, computational biology and biological sequence analysis. As of 2016 projects include the use of Hidden Markov models in HMMER, Infernal Pfam and Rfam.
Cyrus Homi Chothia was an English biochemist who was an emeritus scientist at the Medical Research Council (MRC) Laboratory of Molecular Biology (LMB) at the University of Cambridge and emeritus fellow of Wolfson College, Cambridge.
Chris Sander is a computational biologist based at the Dana-Farber Cancer Center and Harvard Medical School. Previously he was chair of the Computational Biology Programme at the Memorial Sloan–Kettering Cancer Center in New York City. In 2015, he moved his lab to the Dana–Farber Cancer Institute and the Cell Biology Department at Harvard Medical School.
Ruth Nussinov is an Israeli-American biologist born in Rehovot who works as a Professor in the Department of Human Genetics, School of Medicine at Tel Aviv University and is the Senior Principal Scientist and Principal Investigator at the National Cancer Institute, National Institutes of Health. Nussinov is also the Editor in Chief of the Current Opinion in Structural Biology and formerly of the journal PLOS Computational Biology.
Burkhard Rost is a scientist leading the Department for Computational Biology & Bioinformatics at the Faculty of Informatics of the Technical University of Munich (TUM). Rost chairs the Study Section Bioinformatics Munich involving the TUM and the Ludwig Maximilian University of Munich (LMU) in Munich. From 2007-2014 Rost was President of the International Society for Computational Biology (ISCB).
Ron Shamir is an Israeli professor of computer science known for his work in graph theory and in computational biology. He holds the Raymond and Beverly Sackler Chair in Bioinformatics, and is the founder and former head of the Edmond J. Safra Center for Bioinformatics at Tel Aviv University.
Alfonso Valencia is a Spanish biologist, ICREA Professor, current director of the Life Sciences department at Barcelona Supercomputing Center. and of Spanish National Bioinformatics Institute (INB-ISCIII). From 2015-2018, he was President of the International Society for Computational Biology. His research is focused on the study of biomedical systems with computational biology and bioinformatics approaches.
Gary Stormo is an American geneticist and currently Joseph Erlanger Professor in the Department of Genetics and the Center for Genome Sciences and Systems Biology at Washington University School of Medicine in St Louis. He is considered one of the pioneers of bioinformatics and genomics. His research combines experimental and computational approaches in order to identify and predict regulatory sequences in DNA and RNA, and their contributions to the regulatory networks that control gene expression.
The ST motif is a commonly occurring feature in proteins and polypeptides. It consists of four or five amino acid residues with either serine or threonine as the first residue. It is defined by two internal hydrogen bonds. One is between the side chain oxygen of residue i and the main chain NH of residue i + 2 or i + 3; the other is between the main chain oxygen of residue i and the main chain NH of residue i + 3 or i + 4. Two websites are available for finding and examining ST motifs in proteins, Motivated Proteins: and PDBeMotif.
Alexander George Bateman is a computational biologist and Head of Protein Sequence Resources at the European Bioinformatics Institute (EBI), part of the European Molecular Biology Laboratory (EMBL) in Cambridge, UK. He has led the development of the Pfam biological database and introduced the Rfam database of RNA families. He has also been involved in the use of Wikipedia for community-based annotation of biological databases.
Christine Anne Orengo is a Professor of Bioinformatics at University College London (UCL) known for her work on protein structure, particularly the CATH database. Orengo serves as president of the International Society for Computational Biology (ISCB), the first woman to do so in the history of the society.
Shoshana Wodak is a computational biologist and an organizational leader in the field of protein-protein docking. Wodak was one of the first people to dock proteins together using a computer program.
Zhiping Weng is the Li Weibo Professor of biomedical research and chair of the program in integrative biology and bioinformatics at the University of Massachusetts Medical School. She was awarded Fellowship of the International Society for Computational Biology (ISCB) in 2020 for outstanding contributions to computational biology and bioinformatics.
Susan Jones is a British computational biologist and bioinformatics group leader at the James Hutton Institute. Her work is specially focused on plant pathogen diagnostics, particularly virus diagnostics, using large datasets of RNA-Seq data. She also works on functional genomics, transcription regulation, protein-protein and protein-nucleic-acid interactions.,