Author details

Full Name

Ian K Blaby

Affiliation

DOE Joint Genome Institute, Lawrence Berkeley National Laboratory

ORCID

Career Start Year

2006

Papers

H Index

Expertise

CM4AI Collaborator

Gloria M Sheynkman (CM4AI)

PMID	Paper Title	Journal Title	Published Year
36781959	Whisperings from not so silent mutations.	Nat Rev Microbiol	2023
37720317	gRNA-SeqRET: a universal tool for targeted and genome-scale gRNA design and sequence extraction for prokaryotes and eukaryotes.	Front Bioeng Biotechnol	2023
37500801	A predicted CRISPR-mediated symbiosis between uncultivated archaea.	Nat Microbiol	2023
36961389	Sensitivity Analysis of Genome-Scale Metabolic Flux Prediction.	J Comput Biol	2023
35243375	Protocol for condition-dependent metabolite yield prediction using the TRIMER pipeline.	STAR Protoc	2022
35584675	Zng1 is a GTP-dependent zinc transferase needed for activation of methionine aminopeptidase.	Cell Rep	2022
35961013	A roadmap for the functional annotation of protein families: a community perspective.	Database (Oxford)	2022
36123347	Structural characterization of a soil viral auxiliary metabolic gene product - a functional chitosanase.	Nat Commun	2022
34385583	Plant single-cell solutions for energy and the environment.	Commun Biol	2021
34761179	TRIMER: Transcription Regulation Integrated with Metabolic Regulation.	iScience	2021
33147260	Bacterial genome editing by coupling Cre-lox and CRISPR-Cas9 systems.	PLoS One	2020
34746437	Building a custom high-throughput platform at the Joint Genome Institute for DNA construct design and assembly-present and future challenges.	Synth Biol (Oxf)	2020
31888454	ManiNetCluster: a novel manifold learning approach to reveal the functional links between gene networks.	BMC Genomics	2019
29671269	Gene Expression Analysis by Arylsulfatase Assays in the Green Alga Chlamydomonas reinhardtii.	Methods Mol Biol	2018
25641364	Exploiting algal NADPH oxidase for biophotovoltaic energy.	Plant Biotechnol J	2016
28053595	Deciphering the Translation Initiation Factor 5A Modification Pathway in Halophilic Archaea.	Archaea	2016
26975219	Deep Learning in Label-free Cell Classification.	Sci Rep	2016
26163317	Activation of Autophagy by Metals in Chlamydomonas reinhardtii.	Eukaryot Cell	2015
26432862	High-Resolution Profiling of a Synchronized Diurnal Transcriptome from Chlamydomonas reinhardtii Reveals Continuous Cell and Metabolic Differentiation.	Plant Cell	2015
26473430	Genome-wide analysis on Chlamydomonas reinhardtii reveals the impact of hydrogen peroxide on protein stress responses and overlap with other stress transcriptomes.	Plant J	2015
24585881	The path to triacylglyceride obesity in the sta6 strain of Chlamydomonas reinhardtii.	Eukaryot Cell	2014
24748044	Nitrogen-Sparing Mechanisms in Chlamydomonas Affect the Transcriptome, the Proteome, and Photosynthetic Metabolism.	Plant Cell	2014
24950814	The Chlamydomonas genome project: a decade on.	Trends Plant Sci	2014
23204464	Quinolinate salvage and insights for targeting NAD biosynthesis in group A streptococci.	J Bacteriol	2013
24280389	Systems-level analysis of nitrogen starvation-induced modifications of carbon metabolism in a Chlamydomonas reinhardtii starchless mutant.	Plant Cell	2013
22020511	Experimental evolution of a facultative thermophile from a mesophilic ancestor.	Appl Environ Microbiol	2012
22274953	The archaeal COG1901/DUF358 SPOUT-methyltransferase members, together with pseudouridine synthase Pus10, catalyze the formation of 1-methylpseudouridine at position 54 of tRNA.	RNA	2012
22403401	Three acyltransferases and nitrogen-responsive regulator are implicated in nitrogen starvation-induced triacylglycerol accumulation in Chlamydomonas.	J Biol Chem	2012
21538139	A 5-formyltetrahydrofolate cycloligase paralog from all domains of life: comparative genomic and experimental evidence for a cryptic role in thiamin metabolism.	Funct Integr Genomics	2011
21810204	Synergistic use of plant-prokaryote comparative genomics for functional annotations.	BMC Genomics	2011
21628430	Pseudouridine formation in archaeal RNAs: The case of Haloferax volcanii.	RNA	2011
19897652	FolX and FolM are essential for tetrahydromonapterin synthesis in Escherichia coli and Pseudomonas aeruginosa.	J Bacteriol	2010
21234384	Towards a systems approach in the genetic analysis of archaea: Accelerating mutant construction and phenotypic analysis in Haloferax volcanii.	Archaea	2010
20926389	Genomics-driven reconstruction of acinetobacter NAD metabolism: insights for antibacterial target selection.	J Biol Chem	2010
20489182	A role for tetrahydrofolates in the metabolism of iron-sulfur clusters in all domains of life.	Proc Natl Acad Sci U S A	2010
19478918	A Gateway platform for functional genomics in Haloferax volcanii: deletion of three tRNA modification genes.	Archaea	2009
19443546	The role of FIS in the Rcd checkpoint and stable maintenance of plasmid ColE1.	Microbiology (Reading)	2009
16442621	A mutational analysis of the ColE1-encoded cell cycle regulator Rcd confirms its role in plasmid stability.	Plasmid	2006

1 - 38 of 38

Sara Calhoun

US DOE Joint Genome Institute, Lawrence Berkeley National Laboratory

Career Start Year 2011

Number of shared co-authors 2

Corey M Hudson

Informatics Institute, University of Missouri

Career Start Year 2011

Number of shared co-authors 2

Shweta Deshpande

Cleveland Clinic Akron General Medical Center

Career Start Year 2007

Number of shared co-authors 3

Morgan N Price

Lawrence Berkeley National Laboratory

Career Start Year 2004

Number of shared co-authors 2

Katherine Huang

Broad Institute of MIT and Harvard

Career Start Year 2004

Number of shared co-authors 2

Megan Bergkessel

University of Dundee

Career Start Year 2004

Number of shared co-authors 0

Intikhab Alam

College of Life Sciences

Career Start Year 2004

Number of shared co-authors 1

Vera van Noort

Leiden University, Institute of Biology Leiden

Career Start Year 2003

Number of shared co-authors 0

David F Savage

University of California berkeley

Career Start Year 2003

Number of shared co-authors 0

Huiming Ding

Massachusetts Institute of Technology

Career Start Year 2003

Number of shared co-authors 0

Karen Moore

University of Exeter

Career Start Year 2000

Number of shared co-authors 2

Alexander Sczyrba

Center for Biotechnology (CeBiTec), Bielefeld University, Universitatsstrasse 27

Career Start Year 2000

Number of shared co-authors 1

Aindrila Mukhopadhyay

Joint BioEnergy Institute

Career Start Year 2000

Number of shared co-authors 3

Nitin S Baliga

Institute for Systems Biology

Career Start Year 1999

Number of shared co-authors 2

Patrik D'haeseleer

Lawrence Livermore National Laboratory

Career Start Year 1999

Number of shared co-authors 4

Douglas B Rusch

Center for Genomics and Bioinformatics, Indiana University

Career Start Year 1998

Number of shared co-authors 2

Marcin P Joachimiak

E O Lawrence Berkeley National Laboratory, UCSF Medical Center, University of California, Berkeley, University of Chicago

Career Start Year 1997

Number of shared co-authors 8

Jonathan H Badger

Center for Cancer Research, National Cancer Institute, National Institutes of Health

Career Start Year 1997

Number of shared co-authors 1

Thomas Brettin

University of Chicago

Career Start Year 1996

Number of shared co-authors 6

Jeremy D Selengut

Craig Venter Institute, 9704 Medical Center Drive

Career Start Year 1994

Number of shared co-authors 6

Manesh Shah

University of Tennessee Knoxville

Career Start Year 1993

Number of shared co-authors 1

Steve Ferriera

Broad Institute of MIT and Harvard

Career Start Year 1993

Number of shared co-authors 2

Ian T Paulsen

Macquarie University

Career Start Year 1992

Number of shared co-authors 6

Lee Ann McCue

Pacific Northwest National Laboratory

Career Start Year 1991

Number of shared co-authors 5

Adam P Arkin

Lawrence Berkeley National Laboratory

Career Start Year 1990

Number of shared co-authors 9

Muh-Ching Yee

Stanford University

Career Start Year 1988

Number of shared co-authors 0

Daniel H Haft

National Center for Biotechnology Information, National Institutes of Health

Career Start Year 1985

Number of shared co-authors 16

Brian J Haas

Broad Institute of MIT and Harvard

Career Start Year 1981

Number of shared co-authors 2

George M Church

Harvard Medical School

Career Start Year 1977

Number of shared co-authors 2

Timothy J Donohue

University of Wisconsin

Career Start Year 1976

Number of shared co-authors 3

row(s) 1 - 30 of 30

Val??rie de Cr??cy-Lagard

University of Florida

Co-authored papers 13

Crysten E Blaby-Haas

Lawrence Berkeley National Laboratory

Co-authored papers 10

David Casero

David Geffen School of Medicine, University of California los angeles

Co-authored papers 4

Matteo Pellegrini

Co-authored papers 4

Irina A Rodionova

University of California at San Diego

Co-authored papers 2

Andrei L Osterman

Sanford Burnham Prebys Medical Discovery Institute

Co-authored papers 2

Stephen G Chamberlin

Southampton General Hospital

Co-authored papers 1

Fran??oise Thibaud-Nissen

National Center for Biotechnology Information, National Institutes of Health

Co-authored papers 1

Seung Y Rhee

Carnegie Institution for Science

Co-authored papers 1

Maria J Martin

European Bioinformatics Institute (EMBL-EBI)

Co-authored papers 1

Diane E Dickel

Co-authored papers 1

Simon Prochnik

Joint Genome Institute

Co-authored papers 1

Antoine Danchin

University of Hong Kong

Co-authored papers 1

Paul Monaghan

University of Florida

Co-authored papers 1

Blake A Simmons

Joint BioEnergy Institute, USA Lawrence Berkeley National Laboratory

Co-authored papers 1

Lucy J Colwell

Google Research

Co-authored papers 1

Alan Bridge

carnegie mellon university

Co-authored papers 1

Ana Conesa

Institute for Integrative Systems Biology, Spanish National Research Council (CSIC)

Co-authored papers 1

Erica Watson Carter

University of Florida Citrus Research and Education Center

Co-authored papers 1

Jason E McDermott

Pacific Northwest National Laboratory

Co-authored papers 1

David Vallenet

Institut Francois Jacob, CNRS, Universite d'Evry, Universite Paris-Saclay

Co-authored papers 1

Richard J Roberts

Co-authored papers 1

Liudmyla Kondratova

Genetics Institute, University of Florida

Co-authored papers 1

Stacey Cleveland

University of Florida

Co-authored papers 1

Cecilia N Arighi

University of Delaware

Co-authored papers 1

Adam M Deutschbauer

Lawrence Berkeley National Laboratory

Co-authored papers 1

Peter Uetz

Center for the Study of Biological Complexity, Virginia Commonwealth University

Co-authored papers 1

Peter R Weigele

New England Biolabs Inc.

Co-authored papers 1

Iddo Friedberg

Iowa State University

Co-authored papers 1

Valerie Wood

University of Cambridge

Co-authored papers 1

1 - 30

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