Departmental Publications 2020

A human cancer cell line initiates DNA replication normally in the absence of ORC5 and ORC2 proteins. Shibata E, Dutta A. J Biol Chem. 2020 Sep 28:jbc.RA120.015450. doi: 10.1074/jbc.RA120.015450. PMID: 32989049

Long Noncoding RNA DRAIC Inhibits Prostate Cancer Progression by Interacting with IKK to Inhibit NF-κB Activation.  Saha S, Kiran M, Kuscu C, Chatrath A, Wotton D, Mayo MW, Dutta A. Cancer Res. 2020 Mar 1;80(5):950-963. doi: 10.1158/0008-5472.CAN-19-3460. Epub 2020 Jan 3. PMID: 31900260

COCOA: coordinate covariation analysis of epigenetic heterogeneity.  Lawson JT, Smith JP, Bekiranov S, Garrett-Bakelman FE, Sheffield NC. Genome Biol. 2020 Sep 7;21(1):240. doi: 10.1186/s13059-020-02139-4. PMID: 3289418

Antitumor effect of insulin-like growth factor-1 receptor inhibition in head and neck squamous cell carcinoma.  Lehman CE, Khalil AA, Axelrod MJ, Dougherty MI, Schoeff SS, Taniguchi LE, Mendez RE, David AP, McGarey PO Jr,, Hubbard MA, Donaldson L, Frierson HF Jr,, Stelow EB, Bekiranov S, Wulfkuhle JD, Petricoin EF, Gioeli DG, Jameson MJ. Laryngoscope. 2020 Jun;130(6):1470-1478. doi: 10.1002/lary.28236. Epub 2019 Aug 21. PMID: 31433065

Topoisomerase II contributes to DNA secondary structure-mediated double-stranded breaks.  Szlachta K, Manukyan A, Raimer HM, Singh S, Salamon A, Guo W, Lobachev KS, Wang YH. Nucleic Acids Res. 2020 Jul 9;48(12):6654-6671. doi: 10.1093/nar/gkaa483. PMID: 32501506

Cryoelectron-Microscopic Structure of the pKpQIL Conjugative Pili from Carbapenem-Resistant Klebsiella pneumoniae.  Zheng W, Pena A, Low WW, Wong JLC, Frankel G, Egelman EH. Structure. 2020 Sep 8:S0969-2126(20)30292-6. doi: 10.1016/j.str.2020.08.010. PMID: 32916103

Atomic structure of the Campylobacter jejuni flagellar filament reveals how ε Proteobacteria escaped Toll-like receptor 5 surveillance.  Kreutzberger MAB, Ewing C, Poly F, Wang F, Egelman EH. Proc Natl Acad Sci U S A. 2020 Jul 21;117(29):16985-16991. doi: 10.1073/pnas.2010996117. Epub 2020 Jul 8.PMID: 32641510

How Do mAbs Make Use of Complement to Kill Cancer Cells? The Role of Ca2.  Taylor RP, Lindorfer MA. Antibodies (Basel). 2020 Sep 4;9(3):E45. doi: 10.3390/antib9030045. PMID: 32899722.

Oncogenic TRIM37 links chemoresistance and metastatic fate in triple-negative breast cancer. Przanowski P, Lou S, Tihagam RD, Mondal T, Conlan C, Shivange G, Saltani I, Singh C, Xing K, Morris BB, Mayo MW, Teixeira L, Lehmann-Che J, Tushir-Singh J, Bhatnagar S.Cancer Res. 2020 Aug 27:canres.1459.2020. doi:  10.1158/0008-5472.CAN-20-1459. PMID: 32855208

ARF-AID: A Rapidly Inducible Protein Degradation System That Preserves Basal Endogenous Protein Levels.  Sathyan KM, Scott TG, Guertin MJ. Curr Protoc Mol Biol. 2020 Sep;132(1):e124. doi: 10.1002/cpmb.124. PMID: 32757370

Implementation of a Hamming distance-like genomic quantum classifier using inner products on ibmqx2 and ibmq_16_melbourne.  Kathuria K, Ratan A, McConnell M, Bekiranov S. Quantum Mach Intell. 2020;2(1):1-26. doi: 10.1007/s42484-020-00017-7. Epub 2020 Jul 17. PMID: 32879908

The Novel ReNu Region of TAF12 Regulates Gcn5 Nucleosomal Acetylation.  Torok MS, Pray-Grant MG, Grant BM, Josephs ME, Grant PA. J Mol Genet (Isleworth).  2019Nov;2(1):https://researchopenworld.com/wp content/uploads/2019/07/JMG-2019-105-Patrick-Grant-USA.pdf. Epub 2019 Jun 10. PMID: 32832935

Clearance of amyloid-beta with bispecific antibody constructs bound to erythrocytes.  Taylor RP, Lindorfer MA, Atkinson JP. Alzheimers Dement (N Y). 2020 Aug 27;6(1):e12067. doi: 10.1002/trc2.12067. eCollection 2020. PMID: 32885023

Oncogenic TRIM37 links chemoresistance and metastatic fate in triple-negative breast cancer.  Przanowski P, Lou S, Tihagam RD, Mondal T, Conlan C, Shivange G, Saltani I, Singh C, Xing K, Morris BB, Mayo MW, Teixeira L, Lehmann-Che J, Tushir-Singh J, Bhatnagar S. Cancer Res. 2020 Aug 27:canres.1459.2020. doi: 10.1158/0008-5472.CAN-20-1459. Online ahead of print. PMID: 32855208

The Underlying Tumor Genomics of Predominant Histologic Subtypes in Lung Adenocarcinoma.  Caso R, Sanchez-Vega F, Tan KS, Mastrogiacomo B, Zhou J, Jones GD, Nguyen B, Schultz N, Connolly JG, Brandt WS, Bott MJ, Rocco G, Molena D, Isbell JM, Liu Y, Mayo MW, Adusumilli PS, Travis WD, Jones DR. J Thorac Oncol. 2020 Aug 10:S1556-0864(20)30636-5. doi: 10.1016/j.jtho.2020.08.005. Online ahead of print. PMID: 32791233

Artificial Intracellular Filaments.  Feng Z, Wang H, Wang F, Oh Y, Berciu C, Cui Q, Egelman EH, Xu B.Cell Rep Phys Sci. 2020 Jul 22;1(7):100085. doi: 10.1016/j.xcrp.2020.100085. Epub 2020 Jul 1. PMID: 32776017

Structures of filamentous viruses infecting hyperthermophilic archaea explain DNA stabilization in extreme environments.  Wang F, Baquero DP, Beltran LC, Su Z, Osinski T, Zheng W, Prangishvili D, Krupovic M, Egelman EH. Proc Natl Acad Sci U S A. 2020 Aug 18;117(33):19643-19652. doi: 10.1073/pnas.2011125117. Epub 2020 Aug 5. PMID: 32759221

The structures of two archaeal type IV pili illuminate evolutionary relationships. Wang F, Baquero DP, Su Z, Beltran LC, Prangishvili D, Krupovic M, Egelman EH. Nat Commun. 2020 Jul 9;11(1):3424. doi: 10.1038/s41467-020-17268-4. PMID: 32647180

Noncanonical Roles of tRNAs: tRNA Fragments and Beyond.  Su Z, Wilson B, Kumar P, Dutta A. Annu Rev Genet. 2020 Aug 25. doi: 10.1146/annurev-genet-022620-101840. Online ahead of print. PMID: 32841070

Imaging Flow Cytometry Quantifies Neural Genome Dynamics.  Michel N, Majumdar UB, Lannigan J, McConnell MJ. Cytometry A. 2019 Aug;95(8):825-835. doi: 10.1002/cyto.a.23783. Epub 2019 May 7. PMID: 31063256

CD20 and CD37 antibodies synergize to activate complement by Fc-mediated clustering.  Oostindie SC van der Horst HJ, Lindorfer MA, Cook EM, Tupitza JC, Zent CS, Burack R, VanDerMeid KR, Strumane K, Chamuleau MED, Mutis T, de Jong RN, Schuurman J, Breij ECW, Beurskens FJ, Parren PWHI, Taylor RP. Haematologica. 2019 Sep;104(9):1841-1852. doi: 10.3324/haematol.2018.207266. Epub 2019 Feb 21. PMID: 30792198

The structures of two archaeal type IV pili illuminate evolutionary relationships.  Wang F, Baquero DP, Su Z, Beltran LC, Prangishvili D, Krupovic M, Egelman EH. Nat Commun. 2020 Jul 9;11(1):3424. doi: 10.1038/s41467-020-17268-4. PMID: 32647180

Atomic structure of the Campylobacter jejuni flagellar filament reveals how ε Proteobacteria escaped Toll-like receptor 5 surveillance.  Kreutzberger MAB, Ewing C, Poly F, Wang F, Egelman EH. Proc Natl Acad Sci U S A. 2020 Jul 21;117(29):16985-16991. doi: 10.1073/pnas.2010996117. Epub 2020 Jul 8.PMID: 32641510

The structure of helical lipoprotein lipase reveals an unexpected twist in lipase storage.  Gunn KH, Roberts BS, Wang F, Strauss JD, Borgnia MJ, Egelman EH, Neher SB. Proc Natl Acad Sci U S A. 2020 May 12;117(19):10254-10264. doi: 10.1073/pnas.1916555117. Epub 2020 Apr 24. PMID: 32332168

Characterization of the Importin-β binding domain in nuclear import receptor KPNA7.  Oostdyk LT, McConnell MJ, Paschal BM. Biochem J. 2019 Nov 15;476(21):3413-3434. doi: 10.1042/BCJ20190717. PMID: 31642884

A Condensed View of the Chromosome Passenger Complex. Trivedi P, Stukenberg PT. Trends Cell Biol.2020 Jul 16:S0962-8924(20)30123-9. doi: 10.1016/j.tcb.2020.06.005. Online ahead of print. PMID: 32684321 Review.

Upregulation of human endogenous retrovirus-K (HML-2) mRNAs in hepatoblastoma: Identification of potential new immunotherapeutic targets and biomarkers.  Grabski DF, Ratan A, Gray LR, Bekiranov S, Rekosh D, Hammarskjold ML, Rasmussen SK. J Pediatr Surg. 2020 May 27:S0022-3468(20)30353-5. doi: 10.1016/j.jpedsurg.2020.05.022. Online ahead of print. PMID: 32682541

The Stem Cell Pluripotency Genes Klf4 and Oct4 Regulate Complex SMC Phenotypic Changes Critical in Late-Stage Atherosclerotic Lesion Pathogenesis.  Alencar GF, Owsiany KM, K S, Sukhavasi K, Mocci G, Nguyen A, Williams CM, Shamsuzzaman S, Mokry M, Henderson CA, Haskins R, Baylis RA, Finn AV, McNamara CA, Zunder ER, Venkata V, Pasterkamp G, Björkegren J, Bekiranov S, Owens GK. Circulation. 2020 Jul 17. doi: 10.1161/CIRCULATIONAHA.120.046672. Online ahead of print. PMID: 32674599

Human endogenous retrovirus-K mRNA expression and genomic alignment data in hepatoblastoma.  Grabski DF, Ratan A, Gray LR, Bekiranov S, Rekosh D, Hammarskjold ML, Rasmussen SK. Data Brief. 2020 Jun 18;31:105895. doi: 10.1016/j.dib.2020.105895. eCollection 2020 Aug. PMID: 32637500

Deletion of Topoisomerase 1 in excitatory neurons causes genomic instability and early onset neurodegeneration.  Fragola G, Mabb AM, Taylor-Blake B, Niehaus JK, Chronister WD, Mao H, Simon JM, Yuan H, Li Z, McConnell MJ, Zylka MJ. Nat Commun. 2020 Apr 23;11(1):1962. doi: 10.1038/s41467-020-15794-9. PMID: 32327659

Characterization of the Importin-β binding domain in nuclear import receptor KPNA7.  Oostdyk LT, McConnell MJ, Paschal BM. Biochem J. 2019 Nov 15;476(21):3413-3434. doi: 10.1042/BCJ20190717. PMID: 31642884

Mutation of complement factor B causing massive fluid-phase dysregulation of the alternative complement pathway can result in atypical hemolytic uremic syndrome. Zhang Y, Kremsdorf R, Sperati CJ, Henriksen KJ, Mori M, Goodfellow RX, Pitcher GR, Benson C, Borsa NG, Taylor RP, Nester CM, Smith RJ. Kidney Int. 2020 Jun 12. pii: S0085-2538(20)30637-2. doi: 10.1016/j.kint.2020.05.028. PMID: 32540405

Osteogenesis imperfecta mutations in plastin 3 lead to impaired calcium regulation of actin bundling. Schwebach CL, Kudryashova E, Zheng W, Orchard M, Smith H, Runyan LA, Egelman EH, Kudryashov DS. Bone Res. 2020 May 22;8:21. doi: 10.1038/s41413-020-0095-2. eCollection 2020. PMID: 32509377

Angiogenin generates specific stress-induced tRNA halves and is not involved in tRF-3-mediated gene silencing. Su Z, Kuscu C, Malik A, Shibata E, Dutta A. J Biol Chem. 2019 Nov 8;294(45):16930-16941. doi: 10.1074/jbc.RA119.009272. Epub 2019 Oct 3. PMID: 31582561

Mapping and Making Sense of Noncoding Mutations in the Genome. Yang J, Adli M. Cancer Res. 2019 Sep 1;79(17):4309-4314. doi: 10.1158/0008-5472.CAN-19-0905. Epub 2019 Aug 6. Review. PMID: 31387922

Topoisomerase II contributes to DNA secondary structure-mediated double-stranded breaks. Szlachta K, Manukyan A, Raimer HM, Singh S, Salamon A, Guo W, Lobachev KS, Wang YH. Nucleic Acids Res. 2020 Jun 5. pii: gkaa483. doi: 10.1093/nar/gkaa483. PMID: 32501506

CNCC: an analysis tool to determine genome-wide DNA break end structure at single-nucleotide resolution. Szlachta K, Raimer HM, Comeau LD, Wang YH. BMC Genomics. 2020 Jan 8;21(1):25. doi: 10.1186/s12864-019-6436-0. PMID: 31914926

Corticosteroids to prevent kidney scarring in children with a febrile urinary tract infection: a randomized trial. Shaikh N, Shope TR, Hoberman A, Muniz GB, Bhatnagar S, Nowalk A, Hickey RW, Michaels MG, Kearney D, Rockette HE, Charron M, Lim R, Majd M, Shalaby-Rana E, Kurs-Lasky M, Cohen DM, Wald ER, Lockhart G, Pohl HG, Martin JM. Pediatr Nephrol. 2020 Jun 15. doi: 10.1007/s00467-020-04622-3. PMID: 32556960

The Biology and Application Areas of CRISPR Technologies. Adli M. J Mol Biol. 2019 Jan 4;431(1):1-2. doi: 10.1016/j.jmb.2018.11.012. Epub 2018 Nov 14. No abstract available. PMID: 30447221

Temporal and Spatial Epigenome Editing Allows Precise Gene Regulation in Mammalian Cells.Kuscu C, Mammadov R, Czikora A, Unlu H, Tufan T, Fischer NL, Arslan S, Bekiranov S, Kanemaki M, Adli M. J Mol Biol. 2019 Jan 4;431(1):111-121. doi: 10.1016/j.jmb.2018.08.001. Epub 2018 Aug 9. PMID: 30098338

CRISPR Ethics: Moral Considerations for Applications of a Powerful Tool. Brokowski C, Adli M. J Mol Biol. 2019 Jan 4;431(1):88-101. doi: 10.1016/j.jmb.2018.05.044. Epub 2018 Jun 7. Review. PMID: 29885329

Neurons with Complex Karyotypes Are Rare in Aged Human Neocortex. Chronister WD, Burbulis IE, Wierman MB, Wolpert MJ, Haakenson MF, Smith ACB, Kleinman JE, Hyde TM, Weinberger DR, Bekiranov S, McConnell MJ. Cell Rep. 2019 Jan 22;26(4):825-835.e7. doi: 10.1016/j.celrep.2018.12.107. PMID: 30673605

An epilepsy-associated mutation in the nuclear import receptor KPNA7 reduces nuclear localization signal binding. Oostdyk LT, Wang Z, Zang C, Li H, McConnell MJ, Paschal BM Sci Rep. 2020 Mar 16;10(1):4844. doi: 10.1038/s41598-020-61369-5. PMID: 32179771

A nuclear lamina-chromatin-Ran GTPase axis modulates nuclear import and DNA damage signaling. Dworak N, Makosa D, Chatterjee M, Jividen K, Yang CS, Snow C, Simke WC, Johnson IG, Kelley JB, Paschal BM. Aging Cell. 2019 Feb;18(1):e12851. doi: 10.1111/acel.12851. Epub 2018 Dec 19. PMID: 30565836

A three-dimensional dementia model reveals spontaneous cell cycle re-entry and a senescence-associated secretory phenotype. Porterfield V, Khan SS, Foff EP, Koseoglu MM, Blanco IK, Jayaraman S, Lien E, McConnell MJ, Bloom GS, Lazo JS, Sharlow ER. Neurobiol Aging. 2020 Feb 19. pii: S0197-4580(20)30038-5. doi: 10.1016/j.neurobiolaging.2020.02.011. PMID: 32184029

An epilepsy-associated mutation in the nuclear import receptor KPNA7 reduces nuclear localization signal binding. Oostdyk LT, Wang Z, Zang C, Li H, McConnell MJ, Paschal BM. Sci Rep. 2020 Mar 16;10(1):4844. doi: 10.1038/s41598-020-61369-5. PMID: 32179771

A deletion in Eml1 leads to bilateral subcortical heterotopia in the tish rat. Grosenbaugh DK, Joshi S, Fitzgerald MP, Lee KS, Wagley PK, Koeppel AF, Turner SD, McConnell MJ, Goodkin HP. Neurobiol Dis. 2020 Mar 13:104836. doi: 10.1016/j.nbd.2020.104836. PMID: 32179177

Neurons with Complex Karyotypes Are Rare in Aged Human Neocortex. Chronister WD, Burbulis IE, Wierman MB, Wolpert MJ, Haakenson MF, Smith ACB, Kleinman JE, Hyde TM, Weinberger DR, Bekiranov S, McConnell MJ. Cell Rep. 2019 Jan 22;26(4):825-835.e7. doi: 10.1016/j.celrep.2018.12.107. PMID: 30673605

Ant-icipating Change: An Epigenetic Switch in Reprogramming the Social Lives of Ants. Pray-Grant MG, Grant PA. Mol Cell. 2020 Jan 16;77(2):205-206. doi: 10.1016/j.molcel.2019.12.006. PMID: 31951544

Ambidextrous helical nanotubes from self-assembly of designed helical hairpin motifs. Hughes SA, Wang F, Wang S, Kreutzberger MAB, Osinski T, Orlova A, Wall JS, Zuo X, Egelman EH, Conticello VP. Proc Natl Acad Sci U S A. 2019 Jul 16;116(29):14456-14464. doi: 10.1073/pnas.1903910116. Epub 2019 Jul 1. PMID: 31262809

A Non-random Mouse Model for Pharmacological Reactivation of Mecp2 on the Inactive X Chromosome.Przanowski P, Zheng Z, Wasko U, Bhatnagar S. J Vis Exp. 2019 May 22;(147). doi: 10.3791/59449. PMID: 31180354

Barriers to integration of bioinformatics into undergraduate life sciences education: A national study of US life sciences faculty uncover significant barriers to integrating bioinformatics into undergraduate instruction. Williams JJ, Drew JC, Galindo-Gonzalez S, Robic S, Dinsdale E, Morgan WR, Triplett EW, Burnette JM 3rd, Donovan SS, Fowlks ER, Goodman AL, Grandgenett NF, Goller CC, Hauser C, Jungck JR, Newman JD, Pearson WR, Ryder EF, Sierk M, Smith TM, Tosado-Acevedo R, Tapprich W, Tobin TC, Toro-Martínez A, Welch LR, Wilson MA, Ebenbach D, McWilliams M, Rosenwald AG, Pauley MA. PLoS One. 2019 Nov 18;14(11):e0224288. doi: 10.1371/journal.pone.0224288. eCollection 2019. PMID: 31738797

Cryo-EM: Ice Is Nice, but Good Ice Can Be Hard to Find. Egelman EH. Biophys J. 2020 Feb 1. pii: S0006-3495(20)30099-0. doi: 10.1016/j.bpj.2020.01.026. No abstract available. PMID: 32061273

Hooked on motility. Egelman EH. Nat Struct Mol Biol. 2019 Oct;26(10):848-849. doi: 10.1038/s41594-019-0302-2. No abstract available.  PMID: 31570876

The pan-cancer landscape of prognostic germline variants in 10,582 patients. Chatrath A, Przanowska R, Kiran S, Su Z, Saha S, Wilson B, Tsunematsu T, Ahn JH, Lee KY, Paulsen T, Sobierajska E, Kiran M, Tang X, Li T, Kumar P, Ratan A, Dutta A. Genome Med. 2020 Feb 17;12(1):15. doi: 10.1186/s13073-020-0718-7. PMID: 32066500

Pausing sites of RNA polymerase II on actively transcribed genes are enriched with DNA double-stranded breaks. Singh S, Szlachta K, Manukyan A, Raimer HM, Dinda M, Bekiranov S, Wang YH. J Biol Chem. 2020 Feb 6. pii: jbc.RA119.011665. doi: 10.1074/jbc.RA119.011665.

PMID: 32029477

Broken by the Cut: A Journey into the Role of Topoisomerase II in DNA Fragility. Atkin ND, Raimer HM, Wang YH. Genes (Basel). 2019 Oct 12;10(10). pii: E791. doi: 10.3390/genes10100791. Review. PMID: 31614754

Ant-icipating Change: An Epigenetic Switch in Reprogramming the Social Lives of Ants. Pray-Grant MG, Grant PA. Mol Cell. 2020 Jan 16;77(2):205-206. doi: 10.1016/j.molcel.2019.12.006.PMID: 31951544

An extensively glycosylated archaeal pilus survives extreme conditions. Wang F, Cvirkaite-Krupovic V, Kreutzberger MAB, Su Z, de Oliveira GAP, Osinski T, Sherman N, DiMaio F, Wall JS, Prangishvili D, Krupovic M, Egelman EH. Nat Microbiol. 2019 Aug;4(8):1401-1410. doi: 10.1038/s41564-019-0458-x. Epub 2019 May 20. PMID: 31110358

Structure of Microbial Nanowires Reveals Stacked Hemes that Transport Electrons over Micrometers. Wang F, Gu Y, O’Brien JP, Yi SM, Yalcin SE, Srikanth V, Shen C, Vu D, Ing NL, Hochbaum AI, Egelman EH, Malvankar NS. Cell. 2019 Apr 4;177(2):361-369.e10. doi: 10.1016/j.cell.2019.03.029. PMID: 30951668

 tRNA-derived fragments and microRNAs in the maternal-fetal interface of a mouse maternal-immune-activation autism model. Su Z, Frost EL, Lammert CR, Przanowska RK, Lukens JR, Dutta A. RNA Biol. 2020 Jan 31:1-13. doi: 10.1080/15476286.2020.1721047. PMID: 31983265

A Sir2-regulated locus control region in the recombination enhancer of Saccharomyces cerevisiae specifies chromosome III structure. Li M, Fine RD, Dinda M, Bekiranov S, Smith JS. PLoS Genet. 2019 Aug 28;15(8):e1008339. doi: 10.1371/journal.pgen.1008339. eCollection 2019 Aug. PMID: 31461456  

High-content phenotypic assay for proliferation of human iPSC-derived cardiomyocytes identifies L-type calcium channels as targets. Woo LA, Tkachenko S, Ding M, Plowright AT, Engkvist O, Andersson H, Drowley L, Barrett I, Firth M, Akerblad P, Wolf MJ, Bekiranov S, Brautigan DL, Wang QD, Saucerman JJ. J Mol Cell Cardiol. 2019 Feb;127:204-214. doi: 10.1016/j.yjmcc.2018.12.015. Epub 2018 Dec 28. PMID: 30597148

CNCC: an analysis tool to determine genome-wide DNA break end structure at single-nucleotide resolution. Szlachta K, Raimer HM, Comeau LD, Wang YH. BMC Genomics. 2020 Jan 8;21(1):25. doi: 10.1186/s12864-019-6436-0. PMID: 31914926

Complement alone drives efficacy of a chimeric antigonococcal monoclonal antibody. Gulati S, Beurskens FJ, de Kreuk BJ, Roza M, Zheng B, DeOliveira RB, Shaughnessy J, Nowak NA, Taylor RP, Botto M, He X, Ingalls RR, Woodruff TM, Song WC, Schuurman J, Rice PA, Ram S. PLoS Biol. 2019 Jun 19;17(6):e3000323. doi: 10.1371/journal.pbio.3000323. eCollection 2019 Jun. PMID: 31216278

Defining data-driven primary transcript annotations with primaryTranscriptAnnotation in R. Anderson WD, Duarte FM, Civelek M, Guertin MJ. Bioinformatics. 2020 Jan 9. pii: btaa011. doi: 10.1093/bioinformatics/btaa011. PMID: 31917388