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Hemali P. Phatnani, Ph.D. - Publications

Affiliations: 
2004 Duke University, Durham, NC 
Area:
Biochemistry
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34/53 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2022 Pandit K, Petrescu J, Cuevas M, Stephenson W, Smibert P, Phatnani H, Maniatis S. An open source toolkit for repurposing Illumina sequencing systems as versatile fluidics and imaging platforms. Scientific Reports. 12: 5081. PMID 35332182 DOI: 10.1038/s41598-022-08740-w  0.719
2021 Maniatis S, Petrescu J, Phatnani H. Spatially resolved transcriptomics and its applications in cancer. Current Opinion in Genetics & Development. 66: 70-77. PMID 33434721 DOI: 10.1016/j.gde.2020.12.002  0.719
2020 Daniloski Z, Jordan TX, Wessels HH, Hoagland DA, Kasela S, Legut M, Maniatis S, Mimitou EP, Lu L, Geller E, Danziger O, Rosenberg BR, Phatnani H, Smibert P, Lappalainen T, et al. Identification of Required Host Factors for SARS-CoV-2 Infection in Human Cells. Cell. PMID 33147445 DOI: 10.1016/j.cell.2020.10.030  0.742
2020 Gregory JA, Hoelzli E, Abdelaal R, Braine C, Cuevas M, Halpern M, Barretto N, Schrode N, Akbalik G, Kang K, Cheng E, Bowles K, Lotz S, Goderie S, Karch CM, ... ... Phatnani H, et al. Cell Type-Specific In Vitro Gene Expression Profiling of Stem Cell-Derived Neural Models. Cells. 9. PMID 32516938 DOI: 10.3390/Cells9061406  0.768
2019 Farhan SMK, Howrigan DP, Abbott LE, Klim JR, Topp SD, Byrnes AE, Churchhouse C, Phatnani H, Smith BN, Rampersaud E, Wu G, Wuu J, Shatunov A, Iacoangeli A, Al Khleifat A, et al. Exome sequencing in amyotrophic lateral sclerosis implicates a novel gene, DNAJC7, encoding a heat-shock protein. Nature Neuroscience. PMID 31768050 DOI: 10.1038/S41593-019-0530-0  0.342
2019 Tam OH, Rozhkov NV, Shaw R, Kim D, Hubbard I, Fennessey S, Propp N, Fagegaltier D, Harris BT, Ostrow LW, Phatnani H, Ravits J, Dubnau J, Gale Hammell M. Postmortem Cortex Samples Identify Distinct Molecular Subtypes of ALS: Retrotransposon Activation, Oxidative Stress, and Activated Glia. Cell Reports. 29: 1164-1177.e5. PMID 31665631 DOI: 10.1016/J.Celrep.2019.09.066  0.357
2019 Schrode N, Ho SM, Yamamuro K, Dobbyn A, Huckins L, Matos MR, Cheng E, Deans PJM, Flaherty E, Barretto N, Topol A, Alganem K, Abadali S, Gregory J, Hoelzli E, ... Phatnani H, et al. Synergistic effects of common schizophrenia risk variants. Nature Genetics. PMID 31548722 DOI: 10.1038/S41588-019-0497-5  0.318
2019 Maniatis S, Äijö T, Vickovic S, Braine C, Kang K, Mollbrink A, Fagegaltier D, Andrusivová Ž, Saarenpää S, Saiz-Castro G, Cuevas M, Watters A, Lundeberg J, Bonneau R, Phatnani H. Spatiotemporal dynamics of molecular pathology in amyotrophic lateral sclerosis. Science (New York, N.Y.). 364: 89-93. PMID 30948552 DOI: 10.1126/Science.Aav9776  0.689
2019 Gelfman S, Dugger SA, Araujo Martins Moreno C, Ren Z, Wolock CJ, Shneider N, Phatnani H, Cirulli ET, Lasseigne BN, Harris T, Maniatis T, Rouleau G, Brown RH, Gitler AD, Myers RM, et al. A new approach for rare variation collapsing on functional protein domains implicates specific genic regions in ALS. Genome Research. PMID 30940688 DOI: 10.1101/Gr.243592.118  0.635
2018 Yuan Y, Xie S, Darnell JC, Darnell AJ, Saito Y, Phatnani H, Murphy EA, Zhang C, Maniatis T, Darnell RB. Cell type-specific CLIP reveals that NOVA regulates cytoskeleton interactions in motoneurons. Genome Biology. 19: 117. PMID 30111345 DOI: 10.1186/S13059-018-1493-2  0.573
2018 Conlon EG, Fagegaltier D, Agius P, Davis-Porada J, Gregory J, Hubbard I, Kang K, Kim D, Phatnani H, Shneider NA, Manley JL. Unexpected similarities between C9ORF72 and sporadic forms of ALS/FTD suggest a common disease mechanism. Elife. 7. PMID 30003873 DOI: 10.7554/Elife.37754  0.36
2018 Nicolas A, Kenna KP, Renton AE, Ticozzi N, Faghri F, Chia R, Dominov JA, Kenna BJ, Nalls MA, Keagle P, Rivera AM, van Rheenen W, Murphy NA, van Vugt JJFA, Geiger JT, ... ... Phatnani H, et al. Genome-wide Analyses Identify KIF5A as a Novel ALS Gene. Neuron. 97: 1268-1283.e6. PMID 29566793 DOI: 10.1016/J.Neuron.2018.02.027  0.533
2017 Tcw J, Wang M, Pimenova AA, Bowles KR, Hartley BJ, Lacin E, Machlovi SI, Abdelaal R, Karch CM, Phatnani H, Slesinger PA, Zhang B, Goate AM, Brennand KJ. An Efficient Platform for Astrocyte Differentiation from Human Induced Pluripotent Stem Cells. Stem Cell Reports. PMID 28757165 DOI: 10.1016/J.Stemcr.2017.06.018  0.318
2015 Phatnani H, Maniatis T. Astrocytes in Neurodegenerative Disease. Cold Spring Harbor Perspectives in Biology. 7. PMID 25877220 DOI: 10.1101/cshperspect.a020628  0.441
2014 Zhang Y, Chen K, Sloan SA, Bennett ML, Scholze AR, O'Keeffe S, Phatnani HP, Guarnieri P, Caneda C, Ruderisch N, Deng S, Liddelow SA, Zhang C, Daneman R, Maniatis T, et al. An RNA-sequencing transcriptome and splicing database of glia, neurons, and vascular cells of the cerebral cortex. The Journal of Neuroscience : the Official Journal of the Society For Neuroscience. 34: 11929-47. PMID 25186741 DOI: 10.1523/Jneurosci.1860-14.2014  0.507
2013 Chiu IM, Morimoto ET, Goodarzi H, Liao JT, O'Keeffe S, Phatnani HP, Muratet M, Carroll MC, Levy S, Tavazoie S, Myers RM, Maniatis T. A neurodegeneration-specific gene-expression signature of acutely isolated microglia from an amyotrophic lateral sclerosis mouse model. Cell Reports. 4: 385-401. PMID 23850290 DOI: 10.1016/J.Celrep.2013.06.018  0.762
2013 Bilican B, Serio A, Barmada SJ, Nishimura AL, Sullivan GJ, Carrasco M, Phatnani HP, Puddifoot CA, Story D, Fletcher J, Park IH, Friedman BA, Daley GQ, Wyllie DJ, Hardingham GE, et al. Comment on "Drug screening for ALS using patient-specific induced pluripotent stem cells". Science Translational Medicine. 5: 188le2. PMID 23740897 DOI: 10.1126/Scitranslmed.3005065  0.535
2013 Serio A, Bilican B, Barmada SJ, Ando DM, Zhao C, Siller R, Burr K, Haghi G, Story D, Nishimura AL, Carrasco MA, Phatnani HP, Shum C, Wilmut I, Maniatis T, et al. Astrocyte pathology and the absence of non-cell autonomy in an induced pluripotent stem cell model of TDP-43 proteinopathy. Proceedings of the National Academy of Sciences of the United States of America. 110: 4697-702. PMID 23401527 DOI: 10.1073/Pnas.1300398110  0.572
2013 Phatnani HP, Guarnieri P, Friedman BA, Carrasco MA, Muratet M, O'Keeffe S, Nwakeze C, Pauli-Behn F, Newberry KM, Meadows SK, Tapia JC, Myers RM, Maniatis T. Intricate interplay between astrocytes and motor neurons in ALS. Proceedings of the National Academy of Sciences of the United States of America. 110: E756-65. PMID 23388633 DOI: 10.1073/Pnas.1222361110  0.666
2012 Bilican B, Serio A, Barmada SJ, Nishimura AL, Sullivan GJ, Carrasco M, Phatnani HP, Puddifoot CA, Story D, Fletcher J, Park IH, Friedman BA, Daley GQ, Wyllie DJ, Hardingham GE, et al. Mutant induced pluripotent stem cell lines recapitulate aspects of TDP-43 proteinopathies and reveal cell-specific vulnerability. Proceedings of the National Academy of Sciences of the United States of America. 109: 5803-8. PMID 22451909 DOI: 10.1073/Pnas.1202922109  0.57
2012 Zhao M, Zhang J, Phatnani H, Scheu S, Maniatis T. Stochastic expression of the interferon-β gene Plos Biology. 10. PMID 22291574 DOI: 10.1371/Journal.Pbio.1001249  0.531
2012 Möller A, Xie SQ, Hosp F, Lang B, Phatnani HP, James S, Ramirez F, Collin GB, Naggert JK, Babu MM, Greenleaf AL, Selbach M, Pombo A. Proteomic analysis of mitotic RNA polymerase II reveals novel interactors and association with proteins dysfunctional in disease. Molecular & Cellular Proteomics : McP. 11: M111.011767. PMID 22199231 DOI: 10.1074/Mcp.M111.011767  0.659
2010 Bartkowiak B, Liu P, Phatnani HP, Fuda NJ, Cooper JJ, Price DH, Adelman K, Lis JT, Greenleaf AL. CDK12 is a transcription elongation-associated CTD kinase, the metazoan ortholog of yeast Ctk1. Genes & Development. 24: 2303-16. PMID 20952539 DOI: 10.1101/Gad.1968210  0.649
2010 Wu J, Phatnani HP, Hsieh TS, Greenleaf AL. The phosphoCTD-interacting domain of Topoisomerase I. Biochemical and Biophysical Research Communications. 397: 117-9. PMID 20493173 DOI: 10.1016/J.Bbrc.2010.05.081  0.64
2009 Chiu IM, Phatnani H, Kuligowski M, Tapia JC, Carrasco MA, Zhang M, Maniatis T, Carroll MC. Activation of innate and humoral immunity in the peripheral nervous system of ALS transgenic mice. Proceedings of the National Academy of Sciences of the United States of America. 106: 20960-5. PMID 19933335 DOI: 10.1073/Pnas.0911405106  0.62
2008 Bennett CB, Westmoreland TJ, Verrier CS, Blanchette CA, Sabin TL, Phatnani HP, Mishina YV, Huper G, Selim AL, Madison ER, Bailey DD, Falae AI, Galli A, Olson JA, Greenleaf AL, et al. Yeast screens identify the RNA polymerase II CTD and SPT5 as relevant targets of BRCA1 interaction. Plos One. 3: e1448. PMID 18197258 DOI: 10.1371/Journal.Pone.0001448  0.639
2006 Phatnani HP, Greenleaf AL. Phosphorylation and functions of the RNA polymerase II CTD. Genes & Development. 20: 2922-36. PMID 17079683 DOI: 10.1101/Gad.1477006  0.666
2006 Li M, Phatnani HP, Greenleaf AL, Zhou P. NMR assignment of the SRI domain of human Set2/HYPB. Journal of Biomolecular Nmr. 36: 5. PMID 16435090 DOI: 10.1007/S10858-005-4690-8  0.606
2005 Li M, Phatnani HP, Guan Z, Sage H, Greenleaf AL, Zhou P. Solution structure of the Set2-Rpb1 interacting domain of human Set2 and its interaction with the hyperphosphorylated C-terminal domain of Rpb1. Proceedings of the National Academy of Sciences of the United States of America. 102: 17636-41. PMID 16314571 DOI: 10.1073/Pnas.0506350102  0.645
2005 Kizer KO, Phatnani HP, Shibata Y, Hall H, Greenleaf AL, Strahl BD. A novel domain in Set2 mediates RNA polymerase II interaction and couples histone H3 K36 methylation with transcript elongation. Molecular and Cellular Biology. 25: 3305-16. PMID 15798214 DOI: 10.1128/Mcb.25.8.3305-3316.2005  0.64
2004 Phatnani HP, Jones JC, Greenleaf AL. Expanding the functional repertoire of CTD kinase I and RNA polymerase II: novel phosphoCTD-associating proteins in the yeast proteome. Biochemistry. 43: 15702-19. PMID 15595826 DOI: 10.1021/Bi048364H  0.667
2004 Jones JC, Phatnani HP, Haystead TA, MacDonald JA, Alam SM, Greenleaf AL. C-terminal repeat domain kinase I phosphorylates Ser2 and Ser5 of RNA polymerase II C-terminal domain repeats. The Journal of Biological Chemistry. 279: 24957-64. PMID 15047695 DOI: 10.1074/Jbc.M402218200  0.63
2004 Phatnani HP, Greenleaf AL. Identifying phosphoCTD-associating proteins. Methods in Molecular Biology (Clifton, N.J.). 257: 17-28. PMID 14769993 DOI: 10.1385/1-59259-750-5:017  0.649
1999 Morris DP, Phatnani HP, Greenleaf AL. Phospho-carboxyl-terminal domain binding and the role of a prolyl isomerase in pre-mRNA 3'-End formation. The Journal of Biological Chemistry. 274: 31583-7. PMID 10531363 DOI: 10.1074/Jbc.274.44.31583  0.652
Low-probability matches (unlikely to be authored by this person)
2022 Šušnjar U, Škrabar N, Brown AL, Abbassi Y, Phatnani H, Cortese A, Cereda C, Bugiardini E, Cardani R, Meola G, Ripolone M, Moggio M, Romano M, Secrier M, Fratta P, et al. Cell environment shapes TDP-43 function with implications in neuronal and muscle disease. Communications Biology. 5: 314. PMID 35383280 DOI: 10.1038/s42003-022-03253-8  0.299
2018 Conlon EG, Fagegaltier D, Agius P, Davis-Porada J, Gregory J, Hubbard I, Kang K, Kim D, Phatnani H, Kwan J, Sareen D, Broach JR, Simmons Z, Arcila-Londono X, Lee EB, et al. Author response: Unexpected similarities between C9ORF72 and sporadic forms of ALS/FTD suggest a common disease mechanism Elife. DOI: 10.7554/Elife.37754.025  0.297
2022 Humphrey J, Venkatesh S, Hasan R, Herb JT, de Paiva Lopes K, Küçükali F, Byrska-Bishop M, Evani US, Narzisi G, Fagegaltier D, Sleegers K, Phatnani H, Knowles DA, Fratta P, Raj T. Integrative transcriptomic analysis of the amyotrophic lateral sclerosis spinal cord implicates glial activation and suggests new risk genes. Nature Neuroscience. PMID 36482247 DOI: 10.1038/s41593-022-01205-3  0.296
2019 Reichenstein I, Eitan C, Diaz-Garcia S, Haim G, Magen I, Siany A, Hoye ML, Rivkin N, Olender T, Toth B, Ravid R, Mandelbaum AD, Yanowski E, Liang J, Rymer JK, ... ... Phatnani H, et al. Human genetics and neuropathology suggest a link between miR-218 and amyotrophic lateral sclerosis pathophysiology. Science Translational Medicine. 11. PMID 31852800 DOI: 10.1126/Scitranslmed.Aav5264  0.282
2019 Farhan SMK, Howrigan DP, Abbott LE, Klim JR, Topp SD, Byrnes AE, Churchhouse C, Phatnani H, Smith BN, Rampersaud E, Wu G, Wuu J, Shatunov A, Iacoangeli A, Khleifat AA, et al. Publisher Correction: Exome sequencing in amyotrophic lateral sclerosis implicates a novel gene, DNAJC7, encoding a heat-shock protein. Nature Neuroscience. PMID 31857710 DOI: 10.1038/S41593-019-0570-5  0.274
2021 Van Harten ACM, Phatnani H, Przedborski S. Non-cell-autonomous pathogenic mechanisms in amyotrophic lateral sclerosis. Trends in Neurosciences. PMID 34006386 DOI: 10.1016/j.tins.2021.04.008  0.263
2017 Ho SM, Hartley BJ, Flaherty E, Rajarajan P, Abdelaal R, Obiorah I, Barretto N, Muhammad H, Phatnani HP, Akbarian S, Brennand KJ. Evaluating Synthetic Activation and Repression of Neuropsychiatric-Related Genes in hiPSC-Derived NPCs, Neurons, and Astrocytes. Stem Cell Reports. PMID 28757163 DOI: 10.1016/J.Stemcr.2017.06.012  0.259
2023 Yadav A, Matson KJE, Li L, Hua I, Petrescu J, Kang K, Alkaslasi MR, Lee DI, Hasan S, Galuta A, Dedek A, Ameri S, Parnell J, Alshardan MM, Qumqumji FA, ... ... Phatnani H, et al. A cellular taxonomy of the adult human spinal cord. Neuron. 111: 328-344.e7. PMID 36731429 DOI: 10.1016/j.neuron.2023.01.007  0.257
2022 Brown AL, Wilkins OG, Keuss MJ, Hill SE, Zanovello M, Lee WC, Bampton A, Lee FCY, Masino L, Qi YA, Bryce-Smith S, Gatt A, Hallegger M, Fagegaltier D, Phatnani H, et al. TDP-43 loss and ALS-risk SNPs drive mis-splicing and depletion of UNC13A. Nature. PMID 35197628 DOI: 10.1038/s41586-022-04436-3  0.256
2023 Pottinger TD, Motelow JE, Povysil G, Moreno CAM, Ren Z, Phatnani H, Aitman TJ, Santoyo-Lopez J, Mitsumoto H, Goldstein DB, Harms MB. Rare variant analyses validate known ALS genes in a multi-ethnic population and identifies ANTXR2 as a candidate in PLS. Research Square. PMID 38196621 DOI: 10.21203/rs.3.rs-3721598/v1  0.247
2022 Eitan C, Siany A, Barkan E, Olender T, van Eijk KR, Moisse M, Farhan SMK, Danino YM, Yanowski E, Marmor-Kollet H, Rivkin N, Yacovzada NS, Hung ST, Cooper-Knock J, Yu CH, ... ... Phatnani H, et al. Whole-genome sequencing reveals that variants in the Interleukin 18 Receptor Accessory Protein 3'UTR protect against ALS. Nature Neuroscience. PMID 35361972 DOI: 10.1038/s41593-022-01040-6  0.241
2020 Prudencio M, Humphrey J, Pickles S, Brown AL, Hill SE, Kachergus J, Shi J, Heckman M, Spiegel M, Cook C, Song Y, Yue M, Daughrity L, Carlomagno Y, Jansen-West K, ... ... Phatnani H, et al. Truncated stathmin-2 is a marker of TDP-43 pathology in frontotemporal dementia. The Journal of Clinical Investigation. PMID 32790644 DOI: 10.1172/Jci139741  0.24
2022 Singh K, Martinez MG, Lin J, Gregory J, Nguyen TU, Abdelaal R, Kang K, Brennand K, Grünweller A, Ouyang Z, Phatnani H, Kielian M, Wendel HG. Transcriptional and Translational Dynamics of Zika and Dengue Virus Infection. Viruses. 14. PMID 35891396 DOI: 10.3390/v14071418  0.226
2023 Pottinger TD, Motelow JE, Povysil G, Moreno CAM, Ren Z, Phatnani H, Aitman TJ, Santoyo-Lopez J, Mitsumoto H, Goldstein DB, Harms MB. Rare variant analyses validate known ALS genes in a multi-ethnic population and identifies as a candidate in PLS. Medrxiv : the Preprint Server For Health Sciences. PMID 37873269 DOI: 10.1101/2023.09.30.23296353  0.219
2023 Yadav A, Matson KJE, Lee D, Alkaslasi MR, Roome RB, Ward ME, Phatnani H, Le Pichon CE, Menon V, Levine AJ. A reproducible signature of cytoskeletal and ALS-related genes in human motoneurons. Neuron. 111: 3742-3744. PMID 38061331 DOI: 10.1016/j.neuron.2023.10.034  0.207
2022 Pérez-Torres EJ, Utkina-Sosunova I, Mishra V, Barbuti P, De Planell-Saguer M, Dermentzaki G, Geiger H, Basile AO, Robine N, Fagegaltier D, Politi KA, Rinchetti P, Jackson-Lewis V, Harms M, Phatnani H, et al. Retromer dysfunction in amyotrophic lateral sclerosis. Proceedings of the National Academy of Sciences of the United States of America. 119: e2118755119. PMID 35749364 DOI: 10.1073/pnas.2118755119  0.206
2022 Cappelli S, Spalloni A, Feiguin F, Visani G, Šušnjar U, Brown AL, De Bardi M, Borsellino G, Secrier M, Phatnani H, Romano M, Fratta P, Longone P, Buratti E. NOS1AP is a novel molecular target and critical factor in TDP-43 pathology. Brain Communications. 4: fcac242. PMID 36267332 DOI: 10.1093/braincomms/fcac242  0.188
2023 Gurkar AU, Gerencser AA, Mora AL, Nelson AC, Zhang AR, Lagnado AB, Enninful A, Benz C, Furman D, Beaulieu D, Jurk D, Thompson EL, Wu F, Rodriguez F, Barthel G, ... ... Phatnani H, et al. Spatial mapping of cellular senescence: emerging challenges and opportunities. Nature Aging. PMID 37400722 DOI: 10.1038/s43587-023-00446-6  0.177
2023 Zanovello M, Ibáñez K, Brown AL, Sivakumar P, Bombaci A, Santos L, van Vugt JJFA, Narzisi G, Karra R, Scholz S, Ding J, Gibbs JR, Chiò A, Dalgard C, Weisburd B, ... ... Phatnani H, et al. Unexpected frequency of the pathogenic AR CAG repeat expansion in the general population. Brain : a Journal of Neurology. PMID 36797998 DOI: 10.1093/brain/awad050  0.126
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