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Natalia Ivanova
Researcher at Lawrence Berkeley National Laboratory
Publications - 557
Citations - 40838
Natalia Ivanova is an academic researcher from Lawrence Berkeley National Laboratory. The author has contributed to research in topics: Genome & Gene. The author has an hindex of 81, co-authored 543 publications receiving 35008 citations. Previous affiliations of Natalia Ivanova include Engelhardt Institute of Molecular Biology & Yale University.
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Journal ArticleDOI
Visualizing structure and transitions in high-dimensional biological data
Kevin R. Moon,David van Dijk,Zheng Wang,Zheng Wang,Scott Gigante,Daniel B. Burkhardt,William S. Chen,Kristina Yim,Antonia van den Elzen,Matthew J. Hirn,Ronald R. Coifman,Natalia Ivanova,Guy Wolf,Smita Krishnaswamy +13 more
TL;DR: It is found that PHATE consistently preserves a range of patterns in data, including continual progressions, branches and clusters, better than other tools, and is applicable to a wide variety of data types.
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Microbial species delineation using whole genome sequences
Neha Varghese,Supratim Mukherjee,Natalia Ivanova,Konstantinos T. Konstantinidis,Kostas Mavrommatis,Nikos C. Kyrpides,Amrita Pati +6 more
TL;DR: This work demonstrates that the combination of gANI and the alignment fraction between two genomes accurately reflects their genomic relatedness, and proposes this precise and objective AF,gANI-based species definition: the MiSI (Microbial Species Identifier) method, to be used to address previous inconsistencies in species classification.
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IMG 4 version of the integrated microbial genomes comparative analysis system
Victor M. Markowitz,I-Min A. Chen,Krishna Palaniappan,Ken Chu,Ernest Szeto,Manoj Pillay,Anna Ratner,Jinghua Huang,Tanja Woyke,Marcel Huntemann,Iain Anderson,Konstantinos Billis,Neha Varghese,Konstantinos Mavromatis,Amrita Pati,Natalia Ivanova,Nikos C. Kyrpides +16 more
TL;DR: Since the last report published in the 2012 NAR Database Issue, IMG’s annotation and data integration pipelines have evolved while new tools have been added for recording and analyzing single cell genomes, RNA Seq and biosynthetic cluster data.
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The genome sequence of the facultative intracellular pathogen Brucella melitensis
Vito G. DelVecchio,Vinayak Kapatral,Rajendra J. Redkar,Guy Patra,Cesar V. Mujer,Tamara Los,Natalia Ivanova,Iain Anderson,Anamitra Bhattacharyya,Athanasios Lykidis,Gary Reznik,Lynn Jablonski,Niels Bent Larsen,Mark D'Souza,Axel Bernal,Mikhail Mazur,Eugene Goltsman,Eugene Selkov,Philip H. Elzer,Sue D. Hagius,David O'Callaghan,Jean-Jacques Letesson,Robert Haselkorn,Nikos C. Kyrpides,Ross Overbeek +24 more
TL;DR: The genome of B. melitensis strain 16M was sequenced and found to contain 3,294,935 bp distributed over two circular chromosomes encoding 3,197 ORFs, similar to other α-proteobacteria.
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Distinct lineage specification roles for NANOG, OCT4, and SOX2 in human embryonic stem cells
TL;DR: It is shown that OCT4 regulates, and interacts with, the BMP4 pathway to specify four developmental fates, which revises the view of how self-renewal is orchestrated in hESCs.