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Prashant Mali

Photo of Prashant Mali
Title(s)Professor, Bioengineering
SchoolVc-academic Affairs
Address9500 Gilman Drive #
La Jolla CA 92093
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    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Human Dorsal Root Ganglia Neuronal Cell Line to Study Nociceptive Signaling: A New Pipeline for Pain Therapy. FASEB J. 2026 Feb 15; 40(3):e71528. Dochnal SA, Du Y, Bandari D, Franco Malange K, Bryant J, Lemes JBP, Whitford A, Cliffe AR, Mali P, Dore K, Miller YI, Yaksh TL. PMID: 41631387; PMCID: PMC12865676.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    2. Genome-wide CRISPR Screening Reveals a PKA-Driven Resistance Mechanism to Metformin for Oral Cancer Prevention That Can Be Exploited by Combination with NSAIDs. Cancer Prev Res (Phila). 2026 Feb 06; 19(2):79-92. Hoang TS, Faraji F, Mendez-Molina AN, Adame-Garcia SR, Sato K, Ishikawa T, Vo PTT, Ramirez SI, Anguiano Quiroz PY, Guo T, Fan K, Wu X, Molinolo AA, Cohen EEW, Mali P, Lippman SM, Gutkind JS. PMID: 41416398; PMCID: PMC12826122.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCells
    3. Multiplexed Pan Soluble Ligandome Assaying via OASIS. bioRxiv. 2025 Dec 23. Lee YH, Doctor Y, Zhang Y, Kumar S, Rainaldi J, Pan E, Mali P. PMID: 41497589; PMCID: PMC12767521.
      View in: PubMed   Mentions:
    4. Regulatable In Vivo Gene Expression via Adaptamers. bioRxiv. 2025 Dec 22. Bryant J, Herron L, Doctor Y, McRae F, Wang J, Hirsch T, Portell A, Kumar S, Mali P. PMID: 41497668; PMCID: PMC12767312.
      View in: PubMed   Mentions:
    5. Engineering filamentous potato virus X as a platform nanotechnology for nucleic acid gene delivery. Sci Rep. 2025 Dec 12; 15(1):43714. Duoto B, Tong M, Barkovich KJ, Schuphan J, Mali P, Steinmetz NF. PMID: 41388037; PMCID: PMC12700909.
      View in: PubMed   Mentions:    Fields:    Translation:AnimalsCells
    6. Genome-Wide CRISPR Screening Reveals That mTOR Inhibition Initiates Ferritinophagy and Ferroptosis in Head and Neck Cancer. Cancer Res. 2025 Aug 15; 85(16):3032-3051. Koshizuka K, Wu X, Sato K, Vo PTT, Murawska GM, Ishikawa T, Wang Z, Molinolo AA, Dennis EA, Nathan CO, Mali P, Gutkind JS. PMID: 40479615; PMCID: PMC12327062.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCells
    7. ADARs: pleiotropy in function, versatility in application. Nucleic Acids Res. 2025 Jul 08; 53(13). Zhang Y, Bryant J, Herron L, Mali P. PMID: 40671518; PMCID: PMC12266145.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimalsCells
    8. Emerging clinical applications of ADAR based RNA editing. Stem Cells Transl Med. 2025 May 19; 14(5). Rainaldi J, Mali P, Nourreddine S. PMID: 40418634; PMCID: PMC12105611.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansAnimalsCells
    9. A Manual for Genome and Transcriptome Engineering. IEEE Rev Biomed Eng. 2025; 18:250-267. Doctor Y, Sanghvi M, Mali P. PMID: 39514364; PMCID: PMC11875898.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimalsCells
    10. A multilineage screen identifies actionable synthetic lethal interactions in human cancers. Nat Genet. 2025 Jan; 57(1):154-164. Fong SH, Kuenzi BM, Mattson NM, Lee J, Sanchez K, Bojorquez-Gomez A, Ford K, Munson BP, Licon K, Bergendahl S, Shen JP, Kreisberg JF, Mali P, Hager JH, White MA, Ideker T. PMID: 39558023; PMCID: PMC12266356.
      View in: PubMed   Mentions: 4     Fields:    Translation:Humans
    11. Charting and probing the activity of ADARs in human development and cell-fate specification. Nat Commun. 2024 11 13; 15(1):9818. Dailamy A, Lyu W, Nourreddine S, Tong M, Rainaldi J, McDonald D, Panwala R, Muotri A, Breen MS, Zhang K, Mali P. PMID: 39537590; PMCID: PMC11561244.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansCells
    12. A PERTURBATION CELL ATLAS OF HUMAN INDUCED PLURIPOTENT STEM CELLS. bioRxiv. 2024 Nov 04. Nourreddine S, Doctor Y, Dailamy A, Forget A, Lee YH, Chinn B, Khaliq H, Polacco B, Muralidharan M, Pan E, Zhang Y, Sigaeva A, Hansen JN, Gao J, Parker JA, Obernier K, Clark T, Chen JY, Metallo C, Lundberg E, Ideker T, Krogan N, Mali P. PMID: 39574586; PMCID: PMC11580897.
      View in: PubMed   Mentions: 1  
    13. Robust genome and cell engineering via in vitro and in situ circularized RNAs. Nat Biomed Eng. 2025 Jan; 9(1):109-126. Tong M, Palmer N, Dailamy A, Kumar A, Khaliq H, Han S, Finburgh E, Wing M, Hong C, Xiang Y, Miyasaki K, Portell A, Rainaldi J, Suhardjo A, Nourreddine S, Chew WL, Kwon EJ, Mali P. PMID: 39187662; PMCID: PMC12186994.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansAnimalsCells
    14. Interface-guided phenotyping of coding variants in the transcription factor RUNX1. Cell Rep. 2024 07 23; 43(7):114436. Ozturk K, Panwala R, Sheen J, Ford K, Jayne N, Portell A, Zhang DE, Hutter S, Haferlach T, Ideker T, Mali P, Carter H. PMID: 38968069; PMCID: PMC11345852.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansCells
    15. A genome-wide CRISPR screen reveals that antagonism of glutamine metabolism sensitizes head and neck squamous cell carcinoma to ferroptotic cell death. Cancer Lett. 2024 Aug 28; 598:217089. Allevato MM, Trinh S, Koshizuka K, Nachmanson D, Nguyen TC, Yokoyama Y, Wu X, Andres A, Wang Z, Watrous J, Molinolo AA, Mali P, Harismendy O, Jain M, Wild R, Gutkind JS. PMID: 38964731; PMCID: PMC12278720.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansAnimalsCells
    16. A Kinome-Wide Synthetic Lethal CRISPR/Cas9 Screen Reveals That mTOR Inhibition Prevents Adaptive Resistance to CDK4/CDK6 Blockade in HNSCC. Cancer Res Commun. 2024 07 01; 4(7):1850-1862. Goto Y, Koshizuka K, Ando T, Izumi H, Wu X, Sato K, Ishikawa T, Ford K, Feng X, Wang Z, Arang N, Allevato MM, Kishore A, Mali P, Gutkind JS. PMID: 38954773; PMCID: PMC11284272.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansAnimalsCells
    17. Cell Maps for Artificial Intelligence: AI-Ready Maps of Human Cell Architecture from Disease-Relevant Cell Lines. bioRxiv. 2024 May 24. Clark T, Mohan J, Schaffer L, Obernier K, Al Manir S, Churas CP, Dailamy A, Doctor Y, Forget A, Hansen JN, Hu M, Lenkiewicz J, Levinson MA, Marquez C, Nourreddine S, Niestroy J, Pratt D, Qian G, Thaker S, Bélisle-Pipon JC, Brandt C, Chen J, Ding Y, Fodeh S, Krogan N, Lundberg E, Mali P, Payne-Foster P, Ratcliffe S, Ravitsky V, Sali A, Schulz W, Ideker T. PMID: 38826258; PMCID: PMC11142054.
      View in: PubMed   Mentions:
    18. Transcriptional control of leukemogenesis by the chromatin reader SGF29. Blood. 2024 02 22; 143(8):697-712. Barbosa K, Deshpande A, Perales M, Xiang P, Murad R, Pramod AB, Minkina A, Robertson N, Schischlik F, Lei X, Sun Y, Brown A, Amend D, Jeremias I, Doench JG, Humphries RK, Ruppin E, Shendure J, Mali P, Adams PD, Deshpande AJ. PMID: 38048593; PMCID: PMC10900139.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansCells
    19. Grand Challenges at the Interface of Engineering and Medicine. IEEE Open J Eng Med Biol. 2024; 5:1-13. Subramaniam S, Akay M, Anastasio MA, Bailey V, Boas D, Bonato P, Chilkoti A, Cochran JR, Colvin V, Desai TA, Duncan JS, Epstein FH, Fraley S, Giachelli C, Grande-Allen KJ, Green J, Guo XE, Hilton IB, Humphrey JD, Johnson CR, Karniadakis G, King MR, Kirsch RF, Kumar S, Laurencin CT, Li S, Lieber RL, Lovell N, Mali P, Margulies SS, Meaney DF, Ogle B, Palsson B, A Peppas N, Perreault EJ, Rabbitt R, Setton LA, Shea LD, Shroff SG, Shung K, Tolias AS, van der Meulen MCH, Varghese S, Vunjak-Novakovic G, White JA, Winslow R, Zhang J, Zhang K, Zukoski C, Miller MI. PMID: 38415197; PMCID: PMC10896418.
      View in: PubMed   Mentions: 6  
    20. Defining the activity of pro-reparative extracellular vesicles in wound healing based on miRNA payloads and cell type-specific lineage mapping. Mol Ther. 2024 Sep 04; 32(9):3059-3079. Park DJ, Choi W, Sayeed S, Dorschner RA, Rainaldi J, Ho K, Kezios J, Nolan JP, Mali P, Costantini T, Eliceiri BP. PMID: 38379282; PMCID: PMC11403212.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansAnimalsCells
    21. Mutation corrections in spinal muscular atrophy. Nat Biomed Eng. 2024 Feb; 8(2):111-113. Portell A, Mali P. PMID: 38129656.
      View in: PubMed   Mentions:    Fields:    Translation:Humans
    22. Systematic discovery of transcription factors that improve hPSC-derived cardiomyocyte maturation via temporal analysis of bioengineered cardiac tissues. APL Bioeng. 2023 Jun; 7(2):026109. Kumar A, He S, Mali P. PMID: 37252678; PMCID: PMC10219684.
      View in: PubMed   Mentions: 3  
    23. Multimodal perturbation analyses of cyclin-dependent kinases reveal a network of synthetic lethalities associated with cell-cycle regulation and transcriptional regulation. Sci Rep. 2023 05 11; 13(1):7678. Ford K, Munson BP, Fong SH, Panwala R, Chu WK, Rainaldi J, Plongthongkum N, Arunachalam V, Kostrowicki J, Meluzzi D, Kreisberg JF, Jensen-Pergakes K, VanArsdale T, Paul T, Tamayo P, Zhang K, Bienkowska J, Mali P, Ideker T. PMID: 37169829; PMCID: PMC10175263.
      View in: PubMed   Mentions: 3     Fields:    Translation:Humans
    24. Insulin-regulated serine and lipid metabolism drive peripheral neuropathy. Nature. 2023 02; 614(7946):118-124. Handzlik MK, Gengatharan JM, Frizzi KE, McGregor GH, Martino C, Rahman G, Gonzalez A, Moreno AM, Green CR, Guernsey LS, Lin T, Tseng P, Ideguchi Y, Fallon RJ, Chaix A, Panda S, Mali P, Wallace M, Knight R, Gantner ML, Calcutt NA, Metallo CM. PMID: 36697822; PMCID: PMC9891999.
      View in: PubMed   Mentions: 84     Fields:    Translation:Animals
    25. RNA editing: Expanding the potential of RNA therapeutics. Mol Ther. 2023 06 07; 31(6):1533-1549. Booth BJ, Nourreddine S, Katrekar D, Savva Y, Bose D, Long TJ, Huss DJ, Mali P. PMID: 36620962; PMCID: PMC9824937.
      View in: PubMed   Mentions: 65     Fields:    Translation:HumansCellsPHPublic Health
    26. Whole-genome CRISPR screening identifies PI3K/AKT as a downstream component of the oncogenic GNAQ-focal adhesion kinase signaling circuitry. J Biol Chem. 2023 02; 299(2):102866. Arang N, Lubrano S, Rigiracciolo DC, Nachmanson D, Lippman SM, Mali P, Harismendy O, Gutkind JS. PMID: 36596361; PMCID: PMC9922814.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    27. Scalable Functional Assays for the Interpretation of Human Genetic Variation. Annu Rev Genet. 2022 11 30; 56:441-465. Tabet D, Parikh V, Mali P, Roth FP, Claussnitzer M. PMID: 36055970.
      View in: PubMed   Mentions: 44     Fields:    Translation:Humans
    28. What are the current bottlenecks in developing and applying CRISPR technologies? Cell Syst. 2022 08 17; 13(8):589-593. Kellogg EH, Gootenberg J, Abudayyeh O, Wong ASL, Dahlman JE, Lapinaite A, Myhrvold C, Liu CC, Hsu PD, Mali P, Qi LS. PMID: 35981511.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
    29. Methods for recruiting endogenous and exogenous ADAR enzymes for site-specific RNA editing. Methods. 2022 09; 205:158-166. Xiang Y, Katrekar D, Mali P. PMID: 35779766.
      View in: PubMed   Mentions: 5     Fields:    Translation:Cells
    30. Efficient in vitro and in vivo RNA editing via recruitment of endogenous ADARs using circular guide RNAs. Nat Biotechnol. 2022 06; 40(6):938-945. Katrekar D, Yen J, Xiang Y, Saha A, Meluzzi D, Savva Y, Mali P. PMID: 35145312; PMCID: PMC9232839.
      View in: PubMed   Mentions: 91     Fields:    Translation:AnimalsCells
    31. Comprehensive interrogation of the ADAR2 deaminase domain for engineering enhanced RNA editing activity and specificity. Elife. 2022 01 19; 11. Katrekar D, Xiang Y, Palmer N, Saha A, Meluzzi D, Mali P. PMID: 35044296; PMCID: PMC8809894.
      View in: PubMed   Mentions: 26     Fields:    Translation:HumansCells
    32. Integrated genome and tissue engineering enables screening of cancer vulnerabilities in physiologically relevant perfusable ex vivo cultures. Biomaterials. 2022 01; 280:121276. Hu M, Lei XY, Larson JD, McAlonis M, Ford K, McDonald D, Mach K, Rusert JM, Wechsler-Reya RJ, Mali P. PMID: 34890975; PMCID: PMC9328412.
      View in: PubMed   Mentions: 6     Fields:    Translation:Humans
    33. Programmatic introduction of parenchymal cell types into blood vessel organoids. Stem Cell Reports. 2021 10 12; 16(10):2432-2441. Dailamy A, Parekh U, Katrekar D, Kumar A, McDonald D, Moreno A, Bagheri P, Ng TN, Mali P. PMID: 34559998; PMCID: PMC8515093.
      View in: PubMed   Mentions: 10     Fields:    Translation:HumansCells
    34. Charting oncogenicity of genes and variants across lineages via multiplexed screens in teratomas. iScience. 2021 Oct 22; 24(10):103149. Parekh U, McDonald D, Dailamy A, Wu Y, Cordes T, Zhang K, Tipps A, Metallo C, Mali P. PMID: 34646987; PMCID: PMC8496177.
      View in: PubMed   Mentions: 2  
    35. Peptide-tiling screens of cancer drivers reveal oncogenic protein domains and associated peptide inhibitors. Cell Syst. 2021 07 21; 12(7):716-732.e7. Ford KM, Panwala R, Chen DH, Portell A, Palmer N, Mali P. PMID: 34051140; PMCID: PMC8298269.
      View in: PubMed   Mentions: 7     Fields:    Translation:HumansCells
    36. Lineage barcoding in mice with homing CRISPR. Nat Protoc. 2021 Apr; 16(4):2088-2108. Leeper K, Kalhor K, Vernet A, Graveline A, Church GM, Mali P, Kalhor R. PMID: 33692551; PMCID: PMC8049957.
      View in: PubMed   Mentions: 20     Fields:    Translation:Animals
    37. Long-lasting analgesia via targeted in situ repression of NaV1.7 in mice. Sci Transl Med. 2021 03 10; 13(584). Moreno AM, Alemán F, Catroli GF, Hunt M, Hu M, Dailamy A, Pla A, Woller SA, Palmer N, Parekh U, McDonald D, Roberts AJ, Goodwill V, Dryden I, Hevner RF, Delay L, Gonçalves Dos Santos G, Yaksh TL, Mali P. PMID: 33692134; PMCID: PMC8830379.
      View in: PubMed   Mentions: 61     Fields:    Translation:Animals
    38. Synthetic Lethal Screens Reveal Cotargeting FAK and MEK as a Multimodal Precision Therapy for GNAQ-Driven Uveal Melanoma. Clin Cancer Res. 2021 06 01; 27(11):3190-3200. Paradis JS, Acosta M, Saddawi-Konefka R, Kishore A, Gomes F, Arang N, Tiago M, Coma S, Lubrano S, Wu X, Ford K, Day CP, Merlino G, Mali P, Pachter JA, Sato T, Aplin AE, Gutkind JS. PMID: 33568347; PMCID: PMC8895627.
      View in: PubMed   Mentions: 45     Fields:    Translation:HumansAnimalsCells
    39. Defining the Teratoma as a Model for Multi-lineage Human Development. Cell. 2020 11 25; 183(5):1402-1419.e18. McDonald D, Wu Y, Dailamy A, Tat J, Parekh U, Zhao D, Hu M, Tipps A, Zhang K, Mali P. PMID: 33152263; PMCID: PMC7704916.
      View in: PubMed   Mentions: 27     Fields:    Translation:HumansAnimalsCells
    40. Translating CRISPR-Cas Therapeutics: Approaches and Challenges. CRISPR J. 2020 08; 3(4):253-275. Tay LS, Palmer N, Panwala R, Chew WL, Mali P. PMID: 32833535; PMCID: PMC7469700.
      View in: PubMed   Mentions: 22     Fields:    Translation:HumansCells
    41. Mapping regulators of cell fate determination: Approaches and challenges. APL Bioeng. 2020 Sep; 4(3):031501. Kumar A, Mali P. PMID: 32637855; PMCID: PMC7332300.
      View in: PubMed   Mentions: 2  
    42. CRISPR-Cas9 Gene Editing of Hematopoietic Stem Cells from Patients with Friedreich's Ataxia. Mol Ther Methods Clin Dev. 2020 Jun 12; 17:1026-1036. Rocca CJ, Rainaldi JN, Sharma J, Shi Y, Haquang JH, Luebeck J, Mali P, Cherqui S. PMID: 32462051; PMCID: PMC7240056.
      View in: PubMed   Mentions: 18  
    43. Immune-orthogonal orthologues of AAV capsids and of Cas9 circumvent the immune response to the administration of gene therapy. Nat Biomed Eng. 2019 10; 3(10):806-816. Moreno AM, Palmer N, Alemán F, Chen G, Pla A, Jiang N, Leong Chew W, Law M, Mali P. PMID: 31332341; PMCID: PMC6783354.
      View in: PubMed   Mentions: 74     Fields:    Translation:AnimalsCells
    44. Humanizing Transcriptome Engineering. Cell. 2019 06 27; 178(1):8-9. Mali P. PMID: 31251918.
      View in: PubMed   Mentions:    Fields:    Translation:HumansCells
    45. RNA-Guided Adenosine Deaminases: Advances and Challenges for Therapeutic RNA Editing. Biochemistry. 2019 04 16; 58(15):1947-1957. Chen G, Katrekar D, Mali P. PMID: 30943016.
      View in: PubMed   Mentions: 15     Fields:    Translation:HumansAnimalsCells
    46. In vivo RNA editing of point mutations via RNA-guided adenosine deaminases. Nat Methods. 2019 03; 16(3):239-242. Katrekar D, Chen G, Meluzzi D, Ganesh A, Worlikar A, Shih YR, Varghese S, Mali P. PMID: 30737497; PMCID: PMC6395520.
      View in: PubMed   Mentions: 114     Fields:    Translation:HumansAnimalsCells
    47. Investigation of Genetic Dependencies Using CRISPR-Cas9-based Competition Assays. J Vis Exp. 2019 01 07; (143). Deshpande A, Chen BR, Zhao L, Saddoris K, Kerr M, Zhu N, Mali P, Deshpande AJ. PMID: 30663717.
      View in: PubMed   Mentions: 1     Fields:    Translation:HumansAnimals
    48. Mapping Cellular Reprogramming via Pooled Overexpression Screens with Paired Fitness and Single-Cell RNA-Sequencing Readout. Cell Syst. 2018 11 28; 7(5):548-555.e8. Parekh U, Wu Y, Zhao D, Worlikar A, Shah N, Zhang K, Mali P. PMID: 30448000; PMCID: PMC6311450.
      View in: PubMed   Mentions: 31     Fields:    Translation:HumansCells
    49. Facile Engineering of Long-Term Culturable Ex Vivo Vascularized Tissues Using Biologically Derived Matrices. Adv Healthc Mater. 2018 12; 7(23):e1800845. Hu M, Dailamy A, Lei XY, Parekh U, McDonald D, Kumar A, Mali P. PMID: 30369101; PMCID: PMC6478398.
      View in: PubMed   Mentions: 13     Fields:    Translation:HumansAnimalsCells
    50. Developmental barcoding of whole mouse via homing CRISPR. Science. 2018 Aug 31; 361(6405). Kalhor R, Kalhor K, Mejia L, Leeper K, Graveline A, Mali P, Church GM. PMID: 30093604; PMCID: PMC6139672.
      View in: PubMed   Mentions: 167     Fields:    Translation:AnimalsCells
    51. Functional Genomics via CRISPR-Cas. J Mol Biol. 2019 Jan 04; 431(1):48-65. Ford K, McDonald D, Mali P. PMID: 29959923; PMCID: PMC6309720.
      View in: PubMed   Mentions: 42     Fields:    Translation:HumansCells
    52. In Situ Gene Therapy via AAV-CRISPR-Cas9-Mediated Targeted Gene Regulation. Mol Ther. 2018 07 05; 26(7):1818-1827. Moreno AM, Fu X, Zhu J, Katrekar D, Shih YV, Marlett J, Cabotaje J, Tat J, Naughton J, Lisowski L, Varghese S, Zhang K, Mali P. PMID: 29754775; PMCID: PMC6035733.
      View in: PubMed   Mentions: 81     Fields:    Translation:HumansAnimalsCells
    53. Oligonucleotide conjugated multi-functional adeno-associated viruses. Sci Rep. 2018 02 26; 8(1):3589. Katrekar D, Moreno AM, Chen G, Worlikar A, Mali P. PMID: 29483550; PMCID: PMC5827683.
      View in: PubMed   Mentions: 34     Fields:    Translation:HumansAnimalsCells
    54. Combinatorial CRISPR-Cas9 Metabolic Screens Reveal Critical Redox Control Points Dependent on the KEAP1-NRF2 Regulatory Axis. Mol Cell. 2018 02 15; 69(4):699-708.e7. Zhao D, Badur MG, Luebeck J, Magaña JH, Birmingham A, Sasik R, Ahn CS, Ideker T, Metallo CM, Mali P. PMID: 29452643; PMCID: PMC5819357.
      View in: PubMed   Mentions: 61     Fields:    Translation:HumansCells
    55. The future of genome editing. Cell. 2018; (173):1311-1313. Pawluk A, Chen J, Ji W, Mali P.
    56. Corrigendum: Engineering and optimising deaminase fusions for genome editing. Nat Commun. 2017 10 09; 8:16169. Yang L, Briggs AW, Chew WL, Mali P, Guell M, Aach J, Goodman DB, Cox D, Kan Y, Lesha E, Soundararajan V, Zhang F, Church G. PMID: 28991237; PMCID: PMC5635175.
      View in: PubMed   Mentions: 1     Fields:    
    57. Genetic interaction mapping in mammalian cells using CRISPR interference. Nat Methods. 2017 Jun; 14(6):577-580. Du D, Roguev A, Gordon DE, Chen M, Chen SH, Shales M, Shen JP, Ideker T, Mali P, Qi LS, Krogan NJ. PMID: 28481362; PMCID: PMC5584685.
      View in: PubMed   Mentions: 78     Fields:    Translation:AnimalsCells
    58. Combinatorial CRISPR-Cas9 screens for de novo mapping of genetic interactions. Nat Methods. 2017 Jun; 14(6):573-576. Shen JP, Zhao D, Sasik R, Luebeck J, Birmingham A, Bojorquez-Gomez A, Licon K, Klepper K, Pekin D, Beckett AN, Sanchez KS, Thomas A, Kuo CC, Du D, Roguev A, Lewis NE, Chang AN, Kreisberg JF, Krogan N, Qi L, Ideker T, Mali P. PMID: 28319113; PMCID: PMC5449203.
      View in: PubMed   Mentions: 203     Fields:    Translation:HumansCells
    59. Therapeutic genome engineering via CRISPR-Cas systems. Wiley Interdiscip Rev Syst Biol Med. 2017 07; 9(4). Moreno AM, Mali P. PMID: 28198142.
      View in: PubMed   Mentions: 7     Fields:    Translation:HumansAnimals
    60. malERA: An updated research agenda for basic science and enabling technologies in malaria elimination and eradication. PLOS Medicine. 2017. The malERA Refresh Consultative Panel on Basic Science and Enabling Technologies.
    61. Genome engineering in human pluripotent stem cells. Current Opinion in Chemical Engineering. 2017; (15):56-67. Parekh U, Yusupova M, Mali P.
    62. Advances in CRISPR-Cas based genome engineering. Current Opinion in Biomedical Engineering. 2017; (1):78-86. Katrekar D, Hu M, Mali P.
    63. Genome engineering via CRISPR-Cas systems: inserting the 'precision' in precision medicine. The Journal of Precision Medicine. 2017. Asudani D, Yusupova M, Mali P.
    64. Rapidly evolving homing CRISPR barcodes. Nat Methods. 2017 Feb; 14(2):195-200. Kalhor R, Mali P, Church GM. PMID: 27918539; PMCID: PMC5322472.
      View in: PubMed   Mentions: 109     Fields:    Translation:HumansCells
    65. Engineering and optimising deaminase fusions for genome editing. Nat Commun. 2016 11 02; 7:13330. Yang L, Briggs AW, Chew WL, Mali P, Guell M, Aach J, Goodman DB, Cox D, Kan Y, Lesha E, Soundararajan V, Zhang F, Church G. PMID: 27804970; PMCID: PMC5097136.
      View in: PubMed   Mentions: 44     Fields:    Translation:HumansCells
    66. A multifunctional AAV-CRISPR-Cas9 and its host response. Nat Methods. 2016 10; 13(10):868-74. Chew WL, Tabebordbar M, Cheng JK, Mali P, Wu EY, Ng AH, Zhu K, Wagers AJ, Church GM. PMID: 27595405; PMCID: PMC5374744.
      View in: PubMed   Mentions: 349     Fields:    Translation:HumansAnimalsCells
    67. CRISPR-Cas: A laboratory manual. Cold Spring Harbor Laboratory Press. 2016. Doudna J, Mali P.
    68. Unraveling CRISPR-Cas9 genome engineering parameters via a library-on-library approach. Nat Methods. 2015 Sep; 12(9):823-6. Chari R, Mali P, Moosburner M, Church GM. PMID: 26167643; PMCID: PMC5292764.
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    69. Multi-kilobase homozygous targeted gene replacement in human induced pluripotent stem cells. Nucleic Acids Res. 2015 Feb 18; 43(3):e21. Byrne SM, Ortiz L, Mali P, Aach J, Church GM. PMID: 25414332; PMCID: PMC4330342.
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    70. Highly multiplexed subcellular RNA sequencing in situ. Science. 2014 Mar 21; 343(6177):1360-3. Lee JH, Daugharthy ER, Scheiman J, Kalhor R, Yang JL, Ferrante TC, Terry R, Jeanty SS, Li C, Amamoto R, Peters DT, Turczyk BM, Marblestone AH, Inverso SA, Bernard A, Mali P, Rios X, Aach J, Church GM. PMID: 24578530; PMCID: PMC4140943.
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    71. Genome editing in human stem cells. Methods Enzymol. 2014; 546:119-38. Byrne SM, Mali P, Church GM. PMID: 25398338; PMCID: PMC4408990.
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    72. CRISPR-Cas-mediated targeted genome editing in human cells. Methods Mol Biol. 2014; 1114:245-67. Yang L, Mali P, Kim-Kiselak C, Church G. PMID: 24557908.
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    73. CasFinder: Flexible algorithm for identifying specific Cas9 targets in genomes. bioRxiv. 2014. Aach J, Mali P, Church GM.
    74. Cas9 as a versatile tool for engineering biology. Nat Methods. 2013 Oct; 10(10):957-63. Mali P, Esvelt KM, Church GM. PMID: 24076990; PMCID: PMC4051438.
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    75. Orthogonal Cas9 proteins for RNA-guided gene regulation and editing. Nat Methods. 2013 Nov; 10(11):1116-21. Esvelt KM, Mali P, Braff JL, Moosburner M, Yaung SJ, Church GM. PMID: 24076762; PMCID: PMC3844869.
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    76. CAS9 transcriptional activators for target specificity screening and paired nickases for cooperative genome engineering. Nat Biotechnol. 2013 Sep; 31(9):833-8. Mali P, Aach J, Stranges PB, Esvelt KM, Moosburner M, Kosuri S, Yang L, Church GM. PMID: 23907171; PMCID: PMC3818127.
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    77. Optimization of scarless human stem cell genome editing. Nucleic Acids Res. 2013 Oct; 41(19):9049-61. Yang L, Guell M, Byrne S, Yang JL, De Los Angeles A, Mali P, Aach J, Kim-Kiselak C, Briggs AW, Rios X, Huang PY, Daley G, Church G. PMID: 23907390; PMCID: PMC3799423.
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    78. Self-organized vascular networks from human pluripotent stem cells in a synthetic matrix. Proc Natl Acad Sci U S A. 2013 Jul 30; 110(31):12601-6. Kusuma S, Shen YI, Hanjaya-Putra D, Mali P, Cheng L, Gerecht S. PMID: 23858432; PMCID: PMC3732921.
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    79. Barcoding cells using cell-surface programmable DNA-binding domains. Nat Methods. 2013 May; 10(5):403-6. Mali P, Aach J, Lee JH, Levner D, Nip L, Church GM. PMID: 23503053; PMCID: PMC3641172.
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    80. Genome engineering in Saccharomyces cerevisiae using CRISPR-Cas systems. Nucleic Acids Res. 2013 Apr; 41(7):4336-43. DiCarlo JE, Norville JE, Mali P, Rios X, Aach J, Church GM. PMID: 23460208; PMCID: PMC3627607.
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    81. RNA-guided human genome engineering via Cas9. Science. 2013 Feb 15; 339(6121):823-6. Mali P, Yang L, Esvelt KM, Aach J, Guell M, DiCarlo JE, Norville JE, Church GM. PMID: 23287722; PMCID: PMC3712628.
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    82. Iterative capped assembly: rapid and scalable synthesis of repeat-module DNA such as TAL effectors from individual monomers. Nucleic Acids Res. 2012 Aug; 40(15):e117. Briggs AW, Rios X, Chari R, Yang L, Zhang F, Mali P, Church GM. PMID: 22740649; PMCID: PMC3424587.
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    83. The differential formation of the LINC-mediated perinuclear actin cap in pluripotent and somatic cells. PLoS One. 2012; 7(5):e36689. Khatau SB, Kusuma S, Hanjaya-Putra D, Mali P, Cheng L, Lee JS, Gerecht S, Wirtz D. PMID: 22574215; PMCID: PMC3344930.
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    84. Efficient derivation and genetic modifications of human pluripotent stem cells on engineered human feeder cell lines. Stem Cells Dev. 2012 Aug 10; 21(12):2298-311. Zou C, Chou BK, Dowey SN, Tsang K, Huang X, Liu CF, Smith C, Yen J, Mali P, Zhang YA, Cheng L, Ye Z. PMID: 22225458; PMCID: PMC3411364.
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    85. Concise review: Human cell engineering: cellular reprogramming and genome editing. Stem Cells. 2012 Jan; 30(1):75-81. Mali P, Cheng L. PMID: 21905170; PMCID: PMC4696036.
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    86. Site-specific gene correction of a point mutation in human iPS cells derived from an adult patient with sickle cell disease. Blood. 2011 Oct 27; 118(17):4599-608. Zou J, Mali P, Huang X, Dowey SN, Cheng L. PMID: 21881051; PMCID: PMC3208277.
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    87. Efficient human iPS cell derivation by a non-integrating plasmid from blood cells with unique epigenetic and gene expression signatures. Cell Res. 2011 Mar; 21(3):518-29. Chou BK, Mali P, Huang X, Ye Z, Dowey SN, Resar LM, Zou C, Zhang YA, Tong J, Cheng L. PMID: 21243013; PMCID: PMC3193421.
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    88. Interplay of RhoA and motility in the programmed spreading of daughter cells postmitosis. Biophys J. 2010 Dec 01; 99(11):3526-34. Mali P, Wirtz D, Searson PC. PMID: 21112276; PMCID: PMC2998611.
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    89. Efficient generation of functional dopaminergic neurons from human induced pluripotent stem cells under defined conditions. Stem Cells. 2010 Oct; 28(10):1893-904. Swistowski A, Peng J, Liu Q, Mali P, Rao MS, Cheng L, Zeng X. PMID: 20715183; PMCID: PMC2996088.
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    90. Cancer-related epigenome changes associated with reprogramming to induced pluripotent stem cells. Cancer Res. 2010 Oct 01; 70(19):7662-73. Ohm JE, Mali P, Van Neste L, Berman DM, Liang L, Pandiyan K, Briggs KJ, Zhang W, Argani P, Simons B, Yu W, Matsui W, Van Criekinge W, Rassool FV, Zambidis E, Schuebel KE, Cope L, Yen J, Mohammad HP, Cheng L, Baylin SB. PMID: 20841480; PMCID: PMC2980296.
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    91. Butyrate greatly enhances derivation of human induced pluripotent stem cells by promoting epigenetic remodeling and the expression of pluripotency-associated genes. Stem Cells. 2010 Apr; 28(4):713-20. Mali P, Chou BK, Yen J, Ye Z, Zou J, Dowey S, Brodsky RA, Ohm JE, Yu W, Baylin SB, Yusa K, Bradley A, Meyers DJ, Mukherjee C, Cole PA, Cheng L. PMID: 20201064; PMCID: PMC3015217.
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    92. An improved method for generating and identifying human induced pluripotent stem cells. Methods Mol Biol. 2010; 636:191-205. Mali P, Ye Z, Chou BK, Yen J, Cheng L. PMID: 20336524.
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    93. Human-induced pluripotent stem cells from blood cells of healthy donors and patients with acquired blood disorders. Blood. 2009 Dec 24; 114(27):5473-80. Ye Z, Zhan H, Mali P, Dowey S, Williams DM, Jang YY, Dang CV, Spivak JL, Moliterno AR, Cheng L. PMID: 19797525; PMCID: PMC2798863.
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    94. Gene targeting of a disease-related gene in human induced pluripotent stem and embryonic stem cells. Cell Stem Cell. 2009 Jul 02; 5(1):97-110. Zou J, Maeder ML, Mali P, Pruett-Miller SM, Thibodeau-Beganny S, Chou BK, Chen G, Ye Z, Park IH, Daley GQ, Porteus MH, Joung JK, Cheng L. PMID: 19540188; PMCID: PMC2720132.
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    95. Improved efficiency and pace of generating induced pluripotent stem cells from human adult and fetal fibroblasts. Stem Cells. 2008 Aug; 26(8):1998-2005. Mali P, Ye Z, Hommond HH, Yu X, Lin J, Chen G, Zou J, Cheng L. PMID: 18511599.
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    96. Notch signaling activation in human embryonic stem cells is required for embryonic, but not trophoblastic, lineage commitment. Cell Stem Cell. 2008 May 08; 2(5):461-71. Yu X, Zou J, Ye Z, Hammond H, Chen G, Tokunaga A, Mali P, Li YM, Civin C, Gaiano N, Cheng L. PMID: 18462696; PMCID: PMC2442567.
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    97. Trophoblast differentiation defect in human embryonic stem cells lacking PIG-A and GPI-anchored cell-surface proteins. Cell Stem Cell. 2008 Apr 10; 2(4):345-55. Chen G, Ye Z, Yu X, Zou J, Mali P, Brodsky RA, Cheng L. PMID: 18397754; PMCID: PMC2442565.
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    98. Promoting human embryonic stem cell renewal or differentiation by modulating Wnt signal and culture conditions. Cell Res. 2007 Jan; 17(1):62-72. Cai L, Ye Z, Zhou BY, Mali P, Zhou C, Cheng L. PMID: 17211448.
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    99. Electrochemical template synthesis of multisegment nanowires: fabrication and protein functionalization. Langmuir. 2006 Dec 05; 22(25):10528-34. Wildt B, Mali P, Searson PC. PMID: 17129026.
      View in: PubMed   Mentions: 6     Fields:    Translation:Cells
    100. Electrochemically programmed release of biomolecules and nanoparticles. Nano Lett. 2006 Jun; 6(6):1250-3. Mali P, Bhattacharjee N, Searson PC. PMID: 16771589.
      View in: PubMed   Mentions: 7     Fields:    Translation:CellsPHPublic Health
    101. Facile fabrication of microfluidic systems using electron beam lithography. Lab Chip. 2006 Feb; 6(2):310-5. Mali P, Sarkar A, Lal R. PMID: 16450043.
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    102. The dnaSET: A novel device for single-molecule DNA sequencing. IEEE Transactions on Electron Devices. 2004; (51):2004-2012. Mali P, Lal R.
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