Personal information

cryo-electron microscopy, dynein, kinesin, machine learning, structure prediction, cloud computing
United States

Biography

Michael Cianfrocco grew up in a small town in upstate New York and went to undergraduate at Providence College in Providence, Rhode Island, where he majored in biochemistry. After that, he did his Ph.D. in biophysics in the lab of Eva Nogales at the University of California, Berkeley, focusing on single particle cryo-electron microscopy of human transcription factor complexes. Following his graduate work, he pursued postdoctoral research jointly in the labs of Samara Reck-Peterson and Andres Leschziner at the University of California, San Diego. During this time, he helped pioneer the use of cloud computing tools for cryo-EM while also discovering a novel mode of dynein regulation by its binding partner Lis1.

In his own lab, Michael is passionate about exploring cell biology through the lens of microtubule motor protein transport and how he can use computational tools to streamline and enhance the power of cryo-EM to determine new and exciting structures.

Activities

Employment (5)

University of Michigan–Ann Arbor: Ann Arbor, US

2018-01-01 to present | Assistant Professor (Biophysics)
Employment
Source: Self-asserted source
Michael A. Cianfrocco

University of Michigan–Ann Arbor: Ann Arbor, US

2017-07-01 to present | Assistant Professor (Biological Chemistry)
Employment
Source: Self-asserted source
Michael A. Cianfrocco

University of Michigan–Ann Arbor: Ann Arbor, US

2017-07-01 to present | Research Assistant Professor (Life Sciences Institute)
Employment
Source: Self-asserted source
Michael A. Cianfrocco

University of California San Diego: La Jolla, CA, US

2015 to 2017 | Post-doctoral fellow (Jointly mentored by Drs. Samara Reck-Peterson and Andres Leschziner) (Cellular and Molecular Medicine)
Employment
Source: Self-asserted source
Michael A. Cianfrocco

Harvard University: Cambridge, MA, US

2013 to 2015 | Post-doctoral fellow (Jointly mentored by Drs. Samara Reck-Peterson and Andres Leschziner) (Molecular and Cellular Biology)
Employment
Source: Self-asserted source
Michael A. Cianfrocco

Education and qualifications (2)

University of California Berkeley: Berkeley, CA, US

2007 to 2012 | Ph.D. Biophysics (Mentor: Eva Nogales) (Biophysics Graduate Group)
Education
Source: Self-asserted source
Michael A. Cianfrocco

Providence College: Providence, RI, US

2003 to 2007 | B.S. Biochemistry (Chemistry)
Education
Source: Self-asserted source
Michael A. Cianfrocco

Professional activities (4)

American Crystallographic Association: Buffalo, New York, US

2019 to present
Membership
Source: Self-asserted source
Michael A. Cianfrocco

Microscopy Society of America: Reston, US

2018 to present
Membership
Source: Self-asserted source
Michael A. Cianfrocco

Biophysical Society: Rockville, Maryland, US

2015 to present
Membership
Source: Self-asserted source
Michael A. Cianfrocco

American Society for Cell Biology: Bethesda, Maryland, US

2015 to present
Membership
Source: Self-asserted source
Michael A. Cianfrocco

Funding (6)

Mechanisms of kinesin motor protein inhibition

2022-09-01 to 2027-06-30 | Grant
National Institute of General Medical Sciences (Bethesda, US)
GRANT_NUMBER: R01GM141119
Source: Self-asserted source
Michael A. Cianfrocco via DimensionsWizard

Determining the role of microtubules and motor proteins during early HIV-1 replication

2021-08-18 to 2023-07-31 | Grant
National Institute of Allergy and Infectious Diseases (Bethesda, US)
GRANT_NUMBER: R21AI152869
Source: Self-asserted source
Michael A. Cianfrocco via DimensionsWizard

cryoEDU: An online curriculum and software platform for hands-on learning in single-particle cryoEM and cryoET

2021-07-01 to 2024-06-30 | Grant
National Eye Institute (Bethesda, US)
GRANT_NUMBER: R25EY032739
Source: Self-asserted source
Michael A. Cianfrocco via DimensionsWizard

Collaborative Research: ABI Development: Building a Community Gateway for Cryo-Electron Microscopy Structure Determination

2018-07-15 to 2024-06-30 | Grant
Directorate for Biological Sciences (Alexandria, US)
GRANT_NUMBER: 1759826
Source: Self-asserted source
Michael A. Cianfrocco via DimensionsWizard

How does dynein achieve processivity?

2013-07-01 to 2016-06-30 | Grant
Damon Runyon Cancer Research Foundation (New York, US)
GRANT_NUMBER:

DRG-2171-13

Source: Self-asserted source
Michael A. Cianfrocco via DimensionsWizard

How does dynein achieve processivity?

2013 to 2017 | Award
Damon Runyon Cancer Research Foundation (NY, NY, US)
GRANT_NUMBER: 2171-13
Source: Self-asserted source
Michael A. Cianfrocco

Works (50 of 55)

Items per page:
Page 1 of 2

Contextual Bandits with Arm Request Costs and Delays

arXiv
2024-10-19 | Journal article
Contributors: Lai Wei; Ambuj Tewari; Michael A. Cianfrocco
Source: Self-asserted source
Michael A. Cianfrocco

CryoRL: Reinforcement Learning Enables Efficient Cryo-EM Data Collection

Proceedings of the IEEE/CVF Winter Conference on Applications of Computer Vision (WACV)
2024-01-04 | Conference paper
Contributors: Fan, Quanfu; Li, Yilai; Yao, Yuguang; Cohn, John; Liu, Sijia; Xu, Ziping; Vos, Seychelle; Cianfrocco, Michael
Source: Self-asserted source
Michael A. Cianfrocco

Bacterial RNA-free RNase P: structural and functional characterization of multiple oligomeric forms of a minimal protein-only ribonuclease P.

The Journal of biological chemistry
2023-10 | Journal article
Contributors: Wilhelm CA; Mallik L; Kelly AL; Brotzman S; Mendoza J; Anders AG; Leskaj S; Castillo C; Ruotolo BT; Cianfrocco MA et al.
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Coupling Semi-supervised Learning with Reinforcement Learning for Better Decision Making --- An application to Cryo-EM Data Collection

NeurIPS 2023 AI for Science Workshop
2023-10-28 | Conference paper
URI:

https://openreview.net/forum?id=kSqEwvApQy

Contributors: Ziping Xu; Quanfu Fan; Yilai Li; Emma Lee; John Cohn; Ambuj Tewari; Seychelle Vos; Michael Cianfrocco
Source: Self-asserted source
Michael A. Cianfrocco

Structural and dynamic changes in P-Rex1 upon activation by PIP<sub>3</sub>and inhibition by IP<sub>4</sub>

2023-09 | Preprint
Contributors: Ravala SK; Adame-Garcia SR; Li S; Chen C; Cianfrocco MA; Gutkind JS; Cash JN; Tesmer JJG
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

HIV-1 binds dynein directly to hijack microtubule transport machinery

2023-08 | Preprint
Contributors: Badieyan S; Lichon D; Andreas MP; Gillies JP; Peng W; Shi J; DeSantis ME; Aiken CR; Böcking T; Giessen TW et al.
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Optimized path planning surpasses human efficiency in cryo-EM imaging

eLife
2023-07-26 | Journal article
Contributors: Yilai Li; Quanfu Fan; Ziping Xu; Emma Rose Lee; John Cohn; Veronique Demers; Ja Young Lee; Lucy Yip; Michael A. Cianfrocco; Seychelle M. Vos
Source: Self-asserted source
Michael A. Cianfrocco

The N-terminal GTPase of Miro1 regulates oligomer formation

2022-10 | Preprint
Contributors: Eberhardt EL; Mohamed AA; Vos S; Cianfrocco MA
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Kinesin-1, -2, and -3 motors use family-specific mechanochemical strategies to effectively compete with dynein during bidirectional transport.

eLife
2022-09 | Journal article
Contributors: Gicking AM; Ma TC; Feng Q; Jiang R; Badieyan S; Cianfrocco MA; Hancock WO
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Kinesin-1, -2 and -3 motors use family-specific mechanochemical strategies to effectively compete with dynein during bidirectional transport

2022-08 | Preprint
Contributors: Gicking AM; Ma T; Feng Q; Jiang R; Badieyan S; Cianfrocco MA; Hancock WO
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Optimized path planning surpasses human efficiency in cryo-EM imaging

2022-06 | Preprint
Contributors: Li Y; Fan Q; Xu Z; Lee ER; Cohn J; Demers V; Lee JY; Yip L; Cianfrocco MA; Vos SM
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

A kinesin-1 variant reveals motor-induced microtubule damage in cells.

Current biology : CB
2022-05 | Journal article
Contributors: Budaitis BG; Badieyan S; Yue Y; Blasius TL; Reinemann DN; Lang MJ; Cianfrocco MA; Verhey KJ
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Cloud computing platforms to support cryo-EM structure determination.

Trends in biochemical sciences
2021-12 | Journal article
Contributors: Li Y; Cianfrocco MA
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Kinesin-binding protein remodels the kinesin motor to prevent microtubule binding.

Science advances
2021-11 | Journal article
Contributors: Solon AL; Tan Z; Schutt KL; Jepsen L; Haynes SE; Nesvizhskii AI; Sept D; Stumpff J; Ohi R; Cianfrocco MA
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

A kinesin-1 variant reveals motor-induced microtubule damage in cells

2021-10 | Preprint
Contributors: Budaitis BG; Badieyan S; Yue Y; Blasius TL; Reinemann DN; Lang MJ; Cianfrocco MA; Verhey KJ
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

A mitochondrial membrane-bridging machinery mediates signal transduction of intramitochondrial oxidation.

Nature metabolism
2021-09 | Journal article
Contributors: Li L; Conradson DM; Bharat V; Kim MJ; Hsieh CH; Minhas PS; Papakyrikos AM; Durairaj AS; Ludlam A; Andreasson KI et al.
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Neuronal SETD2 activity links microtubule methylation to an anxiety-like phenotype in mice.

Brain : a journal of neurology
2021-09 | Journal article
Contributors: Koenning M; Wang X; Karki M; Jangid RK; Kearns S; Tripathi DN; Cianfrocco M; Verhey KJ; Jung SY; Coarfa C et al.
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Kinesin-binding protein remodels the kinesin motor to prevent microtubule-binding

2021-06 | Preprint
Contributors: Solon AL; Tan Z; Schutt KL; Jepsen L; Haynes SE; Nesvizhskii AI; Sept D; Stumpff J; Ohi R; Cianfrocco MA
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Molecular determinants for α-tubulin methylation by SETD2.

The Journal of biological chemistry
2021-06 | Journal article
Contributors: Kearns S; Mason FM; Rathmell WK; Park IY; Walker C; Verhey KJ; Cianfrocco MA
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Parthenolide Destabilizes Microtubules by Covalently Modifying Tubulin.

Current biology : CB
2021-01 | Journal article
Contributors: Hotta T; Haynes SE; Blasius TL; Gebbie M; Eberhardt EL; Sept D; Cianfrocco M; Verhey KJ; Nesvizhskii AI; Ohi R
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Structural analyses of the PKA RIIβ holoenzyme containing the oncogenic DnaJB1-PKAc fusion protein reveal protomer asymmetry and fusion-induced allosteric perturbations in fibrolamellar hepatocellular carcinoma.

PLoS biology
2020-12 | Journal article
Contributors: Lu TW; Aoto PC; Weng JH; Nielsen C; Cash JN; Hall J; Zhang P; Simon SM; Cianfrocco MA; Taylor SS
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

High-resolution cryo-EM using beam-image shift at 200 keV.

IUCrJ
2020-10 | Journal article
Contributors: Cash JN; Kearns S; Li Y; Cianfrocco MA
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Molecular determinants for α-tubulin methylation by SETD2

2020-10 | Preprint
Contributors: Kearns S; Mason FM; Rathmell WK; Park IY; Walker C; Verhey K; Cianfrocco MA
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

The Huntingtin-interacting protein SETD2/HYPB is an actin lysine methyltransferase.

Science advances
2020-10 | Journal article
Contributors: Seervai RNH; Jangid RK; Karki M; Tripathi DN; Jung SY; Kearns SE; Verhey KJ; Cianfrocco MA; Millis BA; Tyska MJ et al.
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Golgi-associated BICD adaptors couple ER membrane penetration and disassembly of a viral cargo.

The Journal of cell biology
2020-05 | Journal article
Contributors: Spriggs CC; Badieyan S; Verhey KJ; Cianfrocco MA; Tsai B
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

High-Throughput Cryo-EM Enabled by User-Free Preprocessing Routines.

Structure (London, England : 1993)
2020-04 | Journal article
Contributors: Li Y; Cash JN; Tesmer JJG; Cianfrocco MA
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

SETD2 is an actin lysine methyltransferase

2020-04 | Preprint
Contributors: Seervai RN; Jangid RK; Karki M; Tripathi DN; Jung SY; Kearns SE; Verhey KJ; Cianfrocco MA; Millis BA; Tyska MJ et al.
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

What Could Go Wrong? A Practical Guide to Single-Particle Cryo-EM: From Biochemistry to Atomic Models.

Journal of chemical information and modeling
2020-03 | Journal article
Contributors: Cianfrocco MA; Kellogg EH
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Miro: A molecular switch at the center of mitochondrial regulation.

Protein science : a publication of the Protein Society
2020-02 | Journal article
Contributors: Eberhardt EL; Ludlam AV; Tan Z; Cianfrocco MA
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

High-resolution cryo-EM using beam-image shift at 200 keV

2020-01 | Preprint
Contributors: Cash JN; Kearns S; Li Y; Cianfrocco MA
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Cryo-EM structure of the human MLL1 core complex bound to the nucleosome.

Nature communications
2019-12 | Journal article
Contributors: Park SH; Ayoub A; Lee YT; Xu J; Kim H; Zheng W; Zhang B; Sha L; An S; Zhang Y et al.
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

High-throughput cryo-EM enabled by user-free preprocessing routines

2019-12 | Preprint
Contributors: Li Y; Cash JN; Tesmer JJ; Cianfrocco MA
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Cryo-electron microscopy structure and analysis of the P-Rex1-Gβγ signaling scaffold.

Science advances
2019-10 | Journal article
Contributors: Cash JN; Urata S; Li S; Ravala SK; Avramova LV; Shost MD; Gutkind JS; Tesmer JJG; Cianfrocco MA
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Cryo-EM structure of the human Mixed Lineage Leukemia-1 complex bound to the nucleosome

2019-08 | Preprint
Contributors: Park SH; Ayoub A; Lee YT; Xu J; Kim H; Zhang W; Zhang B; An S; Zhang Y; Cianfrocco MA et al.
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

The Central Stalk Determines the Motility of Mitotic Kinesin-14 Homodimers.

Current biology : CB
2018-07 | Journal article
Contributors: Wang P; Tseng KF; Gao Y; Cianfrocco M; Guo L; Qiu W
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

cryoem-cloud-tools: A software platform to deploy and manage cryo-EM jobs in the cloud.

Journal of structural biology
2018-06 | Journal article
Contributors: Cianfrocco MA; Lahiri I; DiMaio F; Leschziner AE
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Generative adversarial networks as a tool to recover structural information from cryo-electron microscopy data

2018-02 | Preprint
Contributors: Su M; Zhang H; Schawinski K; Zhang C; Cianfrocco MA
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

An integrated, pipeline-based approach for cryo-EM structure determination and atomic model refinement in the cloud

2018-01 | Preprint
Contributors: Cianfrocco MA; Lahiri I; DiMaio F; Leschziner AE
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Structural basis for the initiation of eukaryotic transcription-coupled DNA repair.

Nature
2017-11 | Journal article
Contributors: Xu J; Lahiri I; Wang W; Wier A; Cianfrocco MA; Chong J; Hare AA; Dervan PB; DiMaio F; Leschziner AE et al.
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Big data in cryoEM: automated collection, processing and accessibility of EM data.

Current opinion in microbiology
2017-10 | Journal article
Contributors: Baldwin PR; Tan YZ; Eng ET; Rice WJ; Noble AJ; Negro CJ; Cianfrocco MA; Potter CS; Carragher B
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Lis1 Has Two Opposing Modes of Regulating Cytoplasmic Dynein.

Cell
2017-09 | Journal article
Contributors: DeSantis ME; Cianfrocco MA; Htet ZM; Tran PT; Reck-Peterson SL; Leschziner AE
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

COSMIC2

Proceedings of the Practice and Experience in Advanced Research Computing 2017 on Sustainability, Success and Impact
2017-07-09 | Conference paper
Contributors: M. A. Cianfrocco; M. Wong-Barnum; C. Youn; R. Wagner; A. Leschziner
Source: Self-asserted source
Michael A. Cianfrocco

Lis1 has two opposing modes of regulating cytoplasmic dynein

2017-06 | Preprint
Contributors: DeSantis ME; Cianfrocco MA; Htet ZM; Tran PT; Reck-Peterson SL; Leschziner AE
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

p53 Dynamically Directs TFIID Assembly on Target Gene Promoters.

Molecular and cellular biology
2017-06 | Journal article
Contributors: Coleman RA; Qiao Z; Singh SK; Peng CS; Cianfrocco M; Zhang Z; Piasecka A; Aldeborgh H; Basishvili G; Liu WL
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Structure of Fam20A reveals a pseudokinase featuring a unique disulfide pattern and inverted ATP-binding.

eLife
2017-04 | Journal article
Contributors: Cui J; Zhu Q; Zhang H; Cianfrocco MA; Leschziner AE; Dixon JE; Xiao J
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

p53 dynamically directs TFIID assembly on target gene promoters

2016-10 | Preprint
Contributors: Coleman RA; Qiao Z; Singh SK; Peng CS; Cianfrocco M; Zhang Z; Piasecka A; Aldeborgh H; Basishvili G; Liu WL
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Antigenic Characterization of the HCMV gH/gL/gO and Pentamer Cell Entry Complexes Reveals Binding Sites for Potently Neutralizing Human Antibodies.

PLoS pathogens
2015-10 | Journal article
Contributors: Ciferri C; Chandramouli S; Leitner A; Donnarumma D; Cianfrocco MA; Gerrein R; Friedrich K; Aggarwal Y; Palladino G; Aebersold R et al.
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Mechanism and regulation of cytoplasmic dynein.

Annual review of cell and developmental biology
2015-09 | Journal article
Contributors: Cianfrocco MA; DeSantis ME; Leschziner AE; Reck-Peterson SL
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Low cost, high performance processing of single particle cryo-electron microscopy data in the cloud.

eLife
2015-05 | Journal article
Contributors: Cianfrocco MA; Leschziner AE
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central

Low cost, high performance processing of single particle cryo-electron microscopy data in the cloud

2015-03 | Preprint
Contributors: Cianfrocco MA; Leschziner AE
Source: Self-asserted source
Michael A. Cianfrocco via Europe PubMed Central
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