Monthly Letter

1. Gene alterations in epigenetic modifiers and JAK-STAT signaling are frequent in breast implant-associated ALCL.
Laurent C, Nicolae A, Laurent C, Le Bras F, Haioun C, Fataccioli V, Amara N, Adélaïde J, Guille A, Schiano JM, Tesson B, Traverse-Glehen A, Chenard MP, Mescam L, Moreau A, Chassagne-Clement C, Somja J, Escudié F, André M, Martin N, Lacroix L, Lemonnier F, Hamy-Petit AS, Reyal F, Bannier M, Oberic L, Prade N, Frénois FX, Beldi-Ferchiou A, Delfau-Larue MH, Bouabdallah R, Birnbaum D, Brousset P, Xerri L, Gaulard P. Blood. 2019 Nov 27. pii: blood.2019001904. doi: 10.1182/blood.2019001904.

2. Human iPSC-derived microglia assume a primary microglia-like state after transplantation into the neonatal mouse brain.
Svoboda DS, Barrasa MI, Shu J, Rietjens R, Zhang S, Mitalipova M, Berube P, Fu D, Shultz LD, Bell GW, Jaenisch R. Proc Natl Acad Sci U S A. 2019 Nov 26. pii: 201913541. doi: 10.1073/pnas.1913541116.

3. RNA-RNA Interactomes of ProQ and Hfq Reveal Overlapping and Competing Roles.
Melamed S, Adams PP, Zhang A, Zhang H, Storz G. Mol Cell. 2019 Nov 18. pii: S1097-2765(19)30800-7. doi: 10.1016/j.molcel.2019.10.022.

4. Poly(A) inclusive RNA isoform sequencing (PAIso-seq) reveals wide-spread non-adenosine residues within RNA poly(A) tails.
Liu Y, Nie H, Liu H, Lu F. Nat Commun. 2019 Nov 22;10(1):5292. doi: 10.1038/s41467-019-13228-9.

5. Brain-to-cervical lymph node signaling after stroke.
Esposito E, Ahn BJ, Shi J, Nakamura Y, Park JH, Mandeville ET, Yu Z, Chan SJ, Desai R, Hayakawa A, Ji X, Lo EH, Hayakawa K. Nat Commun. 2019 Nov 22;10(1):5306. doi: 10.1038/s41467-019-13324-w.

6. Personalised analytics for rare disease diagnostics.
Anderson D, Baynam G, Blackwell JM, Lassmann T. Nat Commun. 2019 Nov 21;10(1):5274. doi: 10.1038/s41467-019-13345-5.

7. Murine single-cell RNA-seq reveals cell-identity- and tissue-specific trajectories of aging.
Kimmel JC, Penland L, Rubinstein ND, Hendrickson DG, Kelley DR, Rosenthal AZ. Genome Res. 2019 Nov 21. doi: 10.1101/gr.253880.119.

8. Single-cell transcriptome analysis reveals differential nutrient absorption functions in human intestine.
Wang Y, Song W, Wang J, Wang T, Xiong X, Qi Z, Fu W, Yang X, Chen YG. J Exp Med. 2019 Nov 21. pii: jem.20191130. doi: 10.1084/jem.20191130.

9. Single-cell transcriptomics of the naked mole-rat reveals unexpected features of mammalian immunity.
Hilton HG, Rubinstein ND, Janki P, Ireland AT, Bernstein N, Fong NL, Wright KM, Smith M, Finkle D, Martin-McNulty B, Roy M, Imai DM, Jojic V, Buffenstein R. PLoS Biol. 2019 Nov 21;17(11):e3000528. doi: 10.1371/journal.pbio.3000528.

10. Life-long impairment of glucose homeostasis upon prenatal exposure to psychostimulants.
Korchynska S, Krassnitzer M, Malenczyk K, Prasad RB, Tretiakov EO, Rehman S, Cinquina V, Gernedl V, Farlik M, Petersen J, Hannes S, Schachenhofer J, Reisinger SN, Zambon A, Asplund O, Artner I, Keimpema E, Lubec G, Mulder J, Bock C, Pollak DD, Romanov RA, Pifl C, Groop L, Hökfelt TG, Harkany T. EMBO J. 2019 Nov 21:e100882. doi: 10.15252/embj.2018100882.

11. Structural variant calling: the long and the short of it.
Mahmoud M, Gobet N, Cruz-Dávalos DI, Mounier N, Dessimoz C, Sedlazeck FJ. Genome Biol. 2019 Nov 20;20(1):246. doi: 10.1186/s13059-019-1828-7. Review.

12. Systematic genetic analysis of the MHC region reveals mechanistic underpinnings of HLA type associations with disease.
D'Antonio M, Reyna J, Jakubosky D, Donovan MK, Bonder MJ, Matsui H, Stegle O, Nariai N, D'Antonio-Chronowska A, Frazer KA. Elife. 2019 Nov 20;8. pii: e48476. doi: 10.7554/eLife.48476.

13. Global H-NS counter-silencing by LuxR activates quorum sensing gene expression.
Chaparian RR, Tran MLN, Miller Conrad LC, Rusch DB, van Kessel JC. Nucleic Acids Res. 2019 Nov 20. pii: gkz1089. doi: 10.1093/nar/gkz1089.

14. Genomic and transcriptomic profiling of carcinogenesis in patients with familial adenomatous polyposis.
Li J, Wang R, Zhou X, Wang W, Gao S, Mao Y, Wu X, Guo L, Liu H, Wen L, Fu W, Tang F. Gut. 2019 Nov 19. pii: gutjnl-2019-319438. doi: 10.1136/gutjnl-2019-319438.

15. Systematic comparative analysis of single-nucleotide variant detection methods from single-cell RNA sequencing data.
Liu F, Zhang Y, Zhang L, Li Z, Fang Q, Gao R, Zhang Z. Genome Biol. 2019 Nov 19;20(1):242. doi: 10.1186/s13059-019-1863-4.

16. Fast, sensitive and accurate integration of single-cell data with Harmony.
Korsunsky I, Millard N, Fan J, Slowikowski K, Zhang F, Wei K, Baglaenko Y, Brenner M, Loh PR, Raychaudhuri S. Nat Methods. 2019 Nov 18. doi: 10.1038/s41592-019-0619-0.

17. Probabilistic cell typing enables fine mapping of closely related cell types in situ.
Qian X, Harris KD, Hauling T, Nicoloutsopoulos D, Muñoz-Manchado AB, Skene N, Hjerling-Leffler J, Nilsson M. Nat Methods. 2019 Nov 18. doi: 10.1038/s41592-019-0631-4.

18. Obligate bacterial endosymbionts limit thermal tolerance of insect host species.
Zhang B, Leonard SP, Li Y, Moran NA. Proc Natl Acad Sci U S A. 2019 Nov 18. pii: 201915307. doi: 10.1073/pnas.1915307116.

19. Chemoenzymatic Synthesis of O-Mannose Glycans Containing Sulfated or Non-Sulfated HNK-1 Epitope.
Gao T, Yan J, Liu CC, Palma AS, Guo Z, Xiao M, Chen X, Liang X, Chai W, Cao H. J Am Chem Soc. 2019 Nov 18. doi: 10.1021/jacs.9b08964.

20. Prominin2 Drives Ferroptosis Resistance by Stimulating Iron Export.
Brown CW, Amante JJ, Chhoy P, Elaimy AL, Liu H, Zhu LJ, Baer CE, Dixon SJ, Mercurio AM. Dev Cell. 2019 Nov 13. pii: S1534-5807(19)30816-0. doi: 10.1016/j.devcel.2019.10.007.

21. Bi-allelic Mutations in TTC29 Cause Male Subfertility with Asthenoteratospermia in Humans and Mice.
Liu C, He X, Liu W, Yang S, Wang L, Li W, Wu H, Tang S, Ni X, Wang J, Gao Y, Tian S, Zhang L, Cong J, Zhang Z, Tan Q, Zhang J, Li H, Zhong Y, Lv M, Li J, Jin L, Cao Y, Zhang F. Am J Hum Genet. 2019 Nov 6. pii: S0002-9297(19)30398-2. doi: 10.1016/j.ajhg.2019.10.010.

22. Mutations in TTC29, Encoding an Evolutionarily Conserved Axonemal Protein, Result in Asthenozoospermia and Male Infertility.
Lorès P, Dacheux D, Kherraf ZE, Nsota Mbango JF, Coutton C, Stouvenel L, Ialy-Radio C, Amiri-Yekta A, Whitfield M, Schmitt A, Cazin C, Givelet M, Ferreux L, Fourati Ben Mustapha S, Halouani L, Marrakchi O, Daneshipour A, El Khouri E, Do Cruzeiro M, Favier M, Guillonneau F, Chaudhry M, Sakheli Z, Wolf JP, Patrat C, Gacon G, Savinov SN, Hosseini SH, Robinson DR, Zouari R, Ziyyat A, Arnoult C, Dulioust E, Bonhivers M, Ray PF, Touré A. Am J Hum Genet. 2019 Nov 5. pii: S0002-9297(19)30395-7. doi: 10.1016/j.ajhg.2019.10.007.

23. Prostaglandin E2 Induces MIR675-5p to Promote Colorectal Tumor Metastasis via Modulation of p53 Expression.
Cen B, Lang JD, Du Y, Wei J, Xiong Y, Bradley N, Wang D, DuBois RN. Gastroenterology. 2019 Nov 14. pii: S0016-5085(19)41559-X. doi: 10.1053/j.gastro.2019.11.013.

24. Xenbase: deep integration of GEO & SRA RNA-seq and ChIP-seq data in a model organism database.
Fortriede JD, Pells TJ, Chu S, Chaturvedi P, Wang D, Fisher ME, James-Zorn C, Wang Y, Nenni MJ, Burns KA, Lotay VS, Ponferrada VG, Karimi K, Zorn AM, Vize PD. Nucleic Acids Res. 2019 Nov 16. pii: gkz933. doi: 10.1093/nar/gkz933.

25. Systematic sequencing of chloroplast transcript termini from Arabidopsis thaliana reveals >200 transcription initiation sites and the extensive imprints of RNA-binding proteins and secondary structures.
Castandet B, Germain A, Hotto AM, Stern DB. Nucleic Acids Res. 2019 Nov 16. pii: gkz1059. doi: 10.1093/nar/gkz1059.

26. HERES, a lncRNA that regulates canonical and noncanonical Wnt signaling pathways via interaction with EZH2.
You BH, Yoon JH, Kang H, Lee EK, Lee SK, Nam JW. Proc Natl Acad Sci U S A. 2019 Nov 15. pii: 201912126. doi: 10.1073/pnas.1912126116.

27. Promoter-specific dynamics of TATA-binding protein association with the human genome.
Hasegawa Y, Struhl K. Genome Res. 2019 Nov 15. doi: 10.1101/gr.254466.119.

28. B Cells and T Follicular Helper Cells Mediate Response to Checkpoint Inhibitors in High Mutation Burden Mouse Models of Breast Cancer.
Hollern DP, Xu N, Thennavan A, Glodowski C, Garcia-Recio S, Mott KR, He X, Garay JP, Carey-Ewend K, Marron D, Ford J, Liu S, Vick SC, Martin M, Parker JS, Vincent BG, Serody JS, Perou CM. Cell. 2019 Nov 14;179(5):1191-1206.e21. doi: 10.1016/j.cell.2019.10.028.

29. A Bayesian mixture model for the analysis of allelic expression in single cells.
Choi K, Raghupathy N, Churchill GA. Nat Commun. 2019 Nov 15;10(1):5188. doi: 10.1038/s41467-019-13099-0.

30. SyntDB: defining orthologues of human long noncoding RNAs across primates.
Bryzghalov O, Szcześniak MW, Makałowska I. Nucleic Acids Res. 2019 Nov 15. pii: gkz941. doi: 10.1093/nar/gkz941.

31. FIN-Seq: transcriptional profiling of specific cell types from frozen archived tissue of the human central nervous system.
Amamoto R, Zuccaro E, Curry NC, Khurana S, Chen HH, Cepko CL, Arlotta P. Nucleic Acids Res. 2019 Nov 15. pii: gkz968. doi: 10.1093/nar/gkz968.

32. Deep profiling and custom databases improve detection of proteoforms generated by alternative splicing.
Agosto LM, Gazzara MR, Radens CM, Sidoli S, Baeza J, Garcia BA, Lynch KW. Genome Res. 2019 Nov 14. doi: 10.1101/gr.248435.119.

33. Rare Genetic Variants Associated With Sudden Cardiac Death in Adults.
Khera AV, Mason-Suares H, Brockman D, Wang M, VanDenburgh MJ, Senol-Cosar O, Patterson C, Newton-Cheh C, Zekavat SM, Pester J, Chasman DI, Kabrhel C, Jensen MK, Manson JE, Gaziano JM, Taylor KD, Sotoodehnia N, Post WS, Rich SS, Rotter JI, Lander ES, Rehm HL, Ng K, Philippakis A, Lebo M, Albert CM, Kathiresan S. J Am Coll Cardiol. 2019 Nov 26;74(21):2623-2634. doi: 10.1016/j.jacc.2019.08.1060. Epub 2019 Nov 11.

34. Evaluation of commonly used analysis strategies for epigenome- and transcriptome-wide association studies through replication of large-scale population studies.
van Rooij J, Mandaviya PR, Claringbould A, Felix JF, van Dongen J, Jansen R, Franke L; BIOS consortium, 't Hoen PAC, Heijmans B, van Meurs JBJ. Genome Biol. 2019 Nov 14;20(1):235. doi: 10.1186/s13059-019-1878-x.

35. oRNAment: a database of putative RNA binding protein target sites in the transcriptomes of model species.
Benoit Bouvrette LP, Bovaird S, Blanchette M, Lécuyer E. Nucleic Acids Res. 2019 Nov 14. pii: gkz986. doi: 10.1093/nar/gkz986.

36. Whole Exome and Transcriptome Sequencing in 1042 Cases Reveals Distinct Clinically Relevant Genetic Subgroups of Follicular Lymphoma.
Li X, Kositsky R, Reddy A, Love C, Naresh K, Koff JL, Nystrand I, Leppä S, Pasanen A, Karjalainen-Lindsberg ML, Dunkel J, Kovanen P, Qin Q, Bhagat G, Leeman-Neill RJ, Goswami RS, Wildeman S, Delabie J, Burack R, Evans AG, Amador C, Yuan J, Qureishi HN, Li S, Xu J, Yin CC, Gang AO, Norgaard PH, Pedersen MØ, Chan JY, Cheah DMZ, Ong SY, Cheng CL, Lee L, Paulua F, Ondrejka SL, Hsi ED, Czader M, Wang L, Landis A, Churnetski MC, Jaye DL, Flowers CR, McCall CM, Neff J, McKinney MS, Fedoriw Y, Powers E, Montgomery ND, Bogusz AM, Stafford Hintz A, Kovach AE, Reddy N, Thompson Arildsen MA, Mason EF, Juskevicius R, Choi W, Au-Yeung R, Tse E, Sarno V, Chadburn A, Lopez R, Chapman JR, Behdad A, Goldschmidt N, Goodlad J, Burton C, Pillai R, Louissaint A, Soliman DS, Panea R, Dave T, Xiong B, Smith E, Dave S. Blood. 2019 Nov 13;134(Supplement_1):19. doi: 10.1182/blood-2019-130255.

37. Genome-wide identification of short 2',3'-cyclic phosphate-containing RNAs and their regulation in aging.
Shigematsu M, Morichika K, Kawamura T, Honda S, Kirino Y. PLoS Genet. 2019 Nov 13;15(11):e1008469. doi: 10.1371/journal.pgen.1008469. eCollection 2019 Nov.

38. Antibody cross-reactivity accounts for widespread appearance of m1A in 5'UTRs.
Grozhik AV, Olarerin-George AO, Sindelar M, Li X, Gross SS, Jaffrey SR. Nat Commun. 2019 Nov 12;10(1):5126. doi: 10.1038/s41467-019-13146-w.

39. Recurrent functional misinterpretation of RNA-seq data caused by sample-specific gene length bias.
Mandelboum S, Manber Z, Elroy-Stein O, Elkon R. PLoS Biol. 2019 Nov 12;17(11):e3000481. doi: 10.1371/journal.pbio.3000481. eCollection 2019 Nov.

40. LncTarD: a manually-curated database of experimentally-supported functional lncRNA-target regulations in human diseases.
Zhao H, Shi J, Zhang Y, Xie A, Yu L, Zhang C, Lei J, Xu H, Leng Z, Li T, Huang W, Lin S, Wang L, Xiao Y, Li X. Nucleic Acids Res. 2019 Nov 12. pii: gkz985. doi: 10.1093/nar/gkz985.

41. Colorectal cancer-associated microbiota contributes to oncogenic epigenetic signatures.
Sobhani I, Bergsten E, Couffin S, Amiot A, Nebbad B, Barau C, de'Angelis N, Rabot S, Canoui-Poitrine F, Mestivier D, Pédron T, Khazaie K, Sansonetti PJ. Proc Natl Acad Sci U S A. 2019 Nov 26;116(48):24285-24295. doi: 10.1073/pnas.1912129116. Epub 2019 Nov 11.

42. Single-cell transcriptomic evidence for dense intracortical neuropeptide networks.
Smith SJ, Sümbül U, Graybuck LT, Collman F, Seshamani S, Gala R, Gliko O, Elabbady L, Miller JA, Bakken TE, Rossier J, Yao Z, Lein E, Zeng H, Tasic B, Hawrylycz M. Elife. 2019 Nov 11;8. pii: e47889. doi: 10.7554/eLife.47889.

43. Impact of mouse contamination in genomic profiling of patient-derived models and best practice for robust analysis.
Jo SY, Kim E, Kim S. Genome Biol. 2019 Nov 11;20(1):231. doi: 10.1186/s13059-019-1849-2.

44. Causal Inference Engine: a platform for directional gene set enrichment analysis and inference of active transcriptional regulators.
Farahmand S, O'Connor C, Macoska JA, Zarringhalam K. Nucleic Acids Res. 2019 Nov 8. pii: gkz1046. doi: 10.1093/nar/gkz1046.

45. AIDE: annotation-assisted isoform discovery with high precision.
Li WV, Li S, Tong X, Deng L, Shi H, Li JJ. Genome Res. 2019 Nov 6. doi: 10.1101/gr.251108.119.

46. DoubletDecon: Deconvoluting Doublets from Single-Cell RNA-Sequencing Data.
DePasquale EAK, Schnell DJ, Van Camp PJ, Valiente-Alandí Í, Blaxall BC, Grimes HL, Singh H, Salomonis N. Cell Rep. 2019 Nov 5;29(6):1718-1727.e8. doi: 10.1016/j.celrep.2019.09.082.

47. A Systems-Based Map of Human Brain Cell-Type Enriched Genes and Malignancy-Associated Endothelial Changes.
Dusart P, Hallström BM, Renné T, Odeberg J, Uhlén M, Butler LM. Cell Rep. 2019 Nov 5;29(6):1690-1706.e4. doi: 10.1016/j.celrep.2019.09.088.

48. Genomic Profiling of Childhood Tumor Patient-Derived Xenograft Models to Enable Rational Clinical Trial Design.
Rokita JL, Rathi KS, Cardenas MF, Upton KA, Jayaseelan J, Cross KL, Pfeil J, Egolf LE, Way GP, Farrel A, Kendsersky NM, Patel K, Gaonkar KS, Modi A, Berko ER, Lopez G, Vaksman Z, Mayoh C, Nance J, McCoy K, Haber M, Evans K, McCalmont H, Bendak K, Böhm JW, Marshall GM, Tyrrell V, Kalletla K, Braun FK, Qi L, Du Y, Zhang H, Lindsay HB, Zhao S, Shu J, Baxter P, Morton C, Kurmashev D, Zheng S, Chen Y, Bowen J, Bryan AC, Leraas KM, Coppens SE, Doddapaneni H, Momin Z, Zhang W, Sacks GI, Hart LS, Krytska K, Mosse YP, Gatto GJ, Sanchez Y, Greene CS, Diskin SJ, Vaske OM, Haussler D, Gastier-Foster JM, Kolb EA, Gorlick R, Li XN, Reynolds CP, Kurmasheva RT, Houghton PJ, Smith MA, Lock RB, Raman P, Wheeler DA, Maris JM. Cell Rep. 2019 Nov 5;29(6):1675-1689.e9. doi: 10.1016/j.celrep.2019.09.071.

49. Chromatin dynamics enable transcriptional rhythms in the cnidarian Nematostella vectensis.
Weizman EN, Tannenbaum M, Tarrant AM, Hakim O, Levy O. PLoS Genet. 2019 Nov 6;15(11):e1008397. doi: 10.1371/journal.pgen.1008397. eCollection 2019 Nov.

50. MRTFB suppresses colorectal cancer development through regulating SPDL1 and MCAM.
Kodama T, Marian TA, Lee H, Kodama M, Li J, Parmacek MS, Jenkins NA, Copeland NG, Wei Z. Proc Natl Acad Sci U S A. 2019 Nov 19;116(47):23625-23635. doi: 10.1073/pnas.1910413116. Epub 2019 Nov 5.

51. Single-Cell Profiling Reveals Sex, Lineage, and Regional Diversity in the Mouse Kidney.
Ransick A, Lindström NO, Liu J, Zhu Q, Guo JJ, Alvarado GF, Kim AD, Black HG, Kim J, McMahon AP. Dev Cell. 2019 Nov 4;51(3):399-413.e7. doi: 10.1016/j.devcel.2019.10.005.

52. De novo-designed translation-repressing riboregulators for multi-input cellular logic.
Kim J, Zhou Y, Carlson PD, Teichmann M, Chaudhary S, Simmel FC, Silver PA, Collins JJ, Lucks JB, Yin P, Green AA. Nat Chem Biol. 2019 Dec;15(12):1173-1182. doi: 10.1038/s41589-019-0388-1. Epub 2019 Nov 4.

53. Transcriptionally Active Androgen Receptor Splice Variants Promote Hepatocellular Carcinoma Progression.
Dauki AM, Blachly JS, Kautto EA, Ezzat S, Abdel-Rahman MH, Coss CC. Cancer Res. 2019 Nov 4. pii: canres.1117.2019. doi: 10.1158/0008-5472.CAN-19-1117.

54. Developmental and cellular age direct conversion of CD4+ T cells into RORγ+ or Helios+ colon Treg cells.
Pratama A, Schnell A, Mathis D, Benoist C. J Exp Med. 2019 Nov 4. pii: jem.20190428. doi: 10.1084/jem.20190428.

55. STAT3 activation through IL-6/IL-11 in cancer-associated fibroblasts promotes colorectal tumour development and correlates with poor prognosis.
Heichler C, Scheibe K, Schmied A, Geppert CI, Schmid B, Wirtz S, Thoma OM, Kramer V, Waldner MJ, Büttner C, Farin HF, Pešić M, Knieling F, Merkel S, Grüneboom A, Gunzer M, Grützmann R, Rose-John S, Koralov SB, Kollias G, Vieth M, Hartmann A, Greten FR, Neurath MF, Neufert C. Gut. 2019 Nov 4. pii: gutjnl-2019-319200. doi: 10.1136/gutjnl-2019-319200.

56. Decoding the complexities of human malaria through systems immunology.
Tran TM, Crompton PD. Immunol Rev. 2019 Nov 3. doi: 10.1111/imr.12817.

57. A multi-sample approach increases the accuracy of transcript assembly.
Song L, Sabunciyan S, Yang G, Florea L. Nat Commun. 2019 Nov 1;10(1):5000. doi: 10.1038/s41467-019-12990-0.

58. Hippo signaling does it again: arbitrating cardiac fibroblast identity and activation.
Johansen AKZ, Molkentin JD. Genes Dev. 2019 Nov 1;33(21-22):1457-1459. doi: 10.1101/gad.332791.119. Review.

59. Comprehensive mapping of abiotic stress inputs into the soybean circadian clock.
Li M, Cao L, Mwimba M, Zhou Y, Li L, Zhou M, Schnable PS, O'Rourke JA, Dong X, Wang W. Proc Natl Acad Sci U S A. 2019 Nov 19;116(47):23840-23849. doi: 10.1073/pnas.1708508116. Epub 2019 Nov 1.

60. Recognition of human gastrointestinal cancer neoantigens by circulating PD-1+ lymphocytes.
Gros A, Tran E, Parkhurst MR, Ilyas S, Pasetto A, Groh EM, Robbins PF, Yossef R, Garcia-Garijo A, Fajardo CA, Prickett TD, Jia L, Gartner JJ, Ray S, Ngo L, Wunderllich JR, Yang JC, Rosenberg SA. J Clin Invest. 2019 Nov 1;129(11):4992-5004. doi: 10.1172/JCI127967.

61. Histone deacetylase 3 controls a transcriptional network required for B cell maturation.
Stengel KR, Bhaskara S, Wang J, Liu Q, Ellis JD, Sampathi S, Hiebert SW. Nucleic Acids Res. 2019 Nov 18;47(20):10612-10627. doi: 10.1093/nar/gkz816.

62. Increased expression of anion transporter SLC26A9 delays diabetes onset in cystic fibrosis.
Lam AN, Aksit MA, Vecchio-Pagan B, Shelton CA, Osorio DL, Anzmann AF, Goff LA, Whitcomb DC, Blackman SM, Cutting GR. J Clin Invest. 2019 Nov 25. pii: 129833. doi: 10.1172/JCI129833.

63. SSBP1 mutations cause mtDNA depletion underlying a complex optic atrophy disorder.
Del Dotto V, Ullah F, Di Meo I, Magini P, Gusic M, Maresca A, Caporali L, Palombo F, Tagliavini F, Baugh EH, Macao B, Szilagyi Z, Peron C, Gustafson MA, Khan K, La Morgia C, Barboni P, Carbonelli M, Valentino ML, Liguori R, Shashi V, Sullivan J, Nagaraj S, El-Dairi M, Iannaccone A, Cutcutache I, Bertini E, Carrozzo R, Emma F, Diomedi-Camassei F, Zanna C, Armstrong M, Page M, Stong N, Boesch S, Kopajtich R, Wortmann S, Sperl W, Davis EE, Copeland WC, Seri M, Falkenberg M, Prokisch H, Katsanis N, Tiranti V, Pippucci T, Carelli V. J Clin Invest. 2019 Nov 18. pii: 128514. doi: 10.1172/JCI128514.

64. Genetic characterization of B-cell prolymphocytic leukemia: a prognostic model involving MYC and TP53.
Chapiro E, Pramil E, Diop M, Roos-Weil D, Dillard C, Gabillaud C, Maloum K, Settegrana C, Baseggio L, Lesesve JF, Yon M, Jondreville L, Lesty C, Davi F, Le Garff-Tavernier M, Droin N, Dessen P, Algrin C, Leblond V, Gabarre J, Bouzy S, Eclache V, Gaillard B, Callet-Bauchu E, Muller M, Lefebvre C, Nadal N, Ittel A, Struski S, Collonge-Rame MA, Quilichini B, Fert-Ferrer S, Auger N, Radford-Weiss I, Wagner L, Scheinost S, Zenz T, Susin SA, Bernard OA, Nguyen-Khac F. Blood. 2019 Nov 21;134(21):1821-1831. doi: 10.1182/blood.2019001187.

65. A general LC-MS-based RNA sequencing method for direct analysis of multiple-base modifications in RNA mixtures.
Zhang N, Shi S, Jia TZ, Ziegler A, Yoo B, Yuan X, Li W, Zhang S. Nucleic Acids Res. 2019 Nov 18;47(20):e125. doi: 10.1093/nar/gkz731.

66. Detection of internal N7-methylguanosine (m7G) RNA modifications by mutational profiling sequencing.
Enroth C, Poulsen LD, Iversen S, Kirpekar F, Albrechtsen A, Vinther J. Nucleic Acids Res. 2019 Nov 18;47(20):e126. doi: 10.1093/nar/gkz736.

67. Cell-type-specific analysis of alternative polyadenylation using single-cell transcriptomics data.
Shulman ED, Elkon R. Nucleic Acids Res. 2019 Nov 4;47(19):10027-10039. doi: 10.1093/nar/gkz781.

68. Global prediction of chromatin accessibility using small-cell-number and single-cell RNA-seq.
Zhou W, Ji Z, Fang W, Ji H. Nucleic Acids Res. 2019 Nov 4;47(19):e121. doi: 10.1093/nar/gkz716.

69. FICC-Seq: a method for enzyme-specified profiling of methyl-5-uridine in cellular RNA.
Carter JM, Emmett W, Mozos IR, Kotter A, Helm M, Ule J, Hussain S. Nucleic Acids Res. 2019 Nov 4;47(19):e113. doi: 10.1093/nar/gkz658.

70. Complete Tracheal Ring Deformity. A Translational Genomics Approach to Pathogenesis.
Sinner DI, Carey B, Zgherea D, Kaufman KM, Leesman L, Wood RE, Rutter MJ, de Alarcon A, Elluru RG, Harley JB, Whitsett JA, Trapnell BC. Am J Respir Crit Care Med. 2019 Nov 15;200(10):1267-1281. doi: 10.1164/rccm.201809-1626OC.

71. Clinical, Histopathological, and Molecular Diagnostics in Lethal Lung Developmental Disorders.
Vincent M, Karolak JA, Deutsch G, Gambin T, Popek E, Isidor B, Szafranski P, Le Caignec C, Stankiewicz P. Am J Respir Crit Care Med. 2019 Nov 1;200(9):1093-1101. doi: 10.1164/rccm.201903-0495TR.