Peer-reviewed articles and conference proceedings

Listed in Europe PMC, latest update: 01.09.2022.
Discover the SIB Remarkable Outputs 2021

The Remarkable Outputs are selected by the Award Committee to provide the community with the yearly achievements by SIB Scientists that are particularly deserving attention. From new algorithms to detect disease-related genes to exploring the origins of sexual reproduction, discover this shortlist of publications, software tools, databases and outreach projects.


  1. Ademi H, Djari C, Mayère C, Neirijnck Y, Sararols P, Rands CM, Stévant I, Conne B, Nef S. Deciphering the origins and fates of steroidogenic lineages in the mouse testis. Cell Rep 2022;39(11):110935
  2. Adler A, Poirier S, Pagni M, Maillard J, Holliger C. Disentangle genus microdiversity within a complex microbial community by using a multi-distance long-read binning method: example of Candidatus Accumulibacter. Environ Microbiol 2022;24(4):2136-2156
  3. Aedo-Lopez V, Gérard CL, Boughdad S, Gautron Moura B, Berthod G, Digklia A, Homicsko K, Schaefer N, Duran R, Cuendet MA, Michielin O. Safety and Efficacy of Ipilimumab plus Nivolumab and Sequential Selective Internal Radiation Therapy in Hepatic and Extrahepatic Metastatic Uveal Melanoma. Cancers (Basel) 2022;14(5):1162
  4. Agostinetto G, Bozzi D, Porro D, Casiraghi M, Labra M, Bruno A. SKIOME Project: a curated collection of skin microbiome datasets enriched with study-related metadata. Database (Oxford) 2022;2022:baac033
  5. Alessandro C, Antoine D, Marta A S P, Olivier M, Vincent Z. SwissBioisostere 2021: updated structural, bioactivity and physicochemical data delivered by a reshaped web interface. Nucleic Acids Res 2022;50(d1):D1382-D1390
  6. Alharbi E, Gadiya Y, Henderson D, Zaliani A, Delfin-Rossaro A, Cambon-Thomsen A, Kohler M, Witt G, Welter D, Juty N, Jay C, Engkvist O, Goble C, Reilly DS, Satagopam V, Ioannidis V, Gu W, Gribbon P. Selection of data sets for FAIRification in drug discovery and development: Which, why, and how? Drug Discov Today 2022;27(8):2080-2085
  7. Andermann T, Antonelli A, Barrett RL, Silvestro D. Estimating Alpha, Beta, and Gamma Diversity Through Deep Learning. Front Plant Sci 2022;13:839407
  8. Andermann T, Strömberg CAE, Antonelli A, Silvestro D. The origin and evolution of open habitats in North America inferred by Bayesian deep learning models. Nat Commun 2022;13(1):4833
  9. Andreatta M, Berenstein AJ, Carmona SJ. scGate: marker-based purification of cell types from heterogeneous single-cell RNA-seq datasets. Bioinformatics 2022:btac141
  10. Andreatta M, David FPA, Iseli C, Guex N, Carmona SJ. SPICA: Swiss portal for immune cell analysis. Nucleic Acids Res 2022;50(d1):D1109-D1114
  11. Andreatta M, Tjitropranoto A, Sherman Z, Kelly MC, Ciucci T, Carmona SJ. A CD4+ T cell reference map delineates subtype-specific adaptation during acute and chronic viral infections. Elife 2022;11:e76339
  12. Antoszewski M, Fournier N, Ruiz Buendía GA, Lourenco J, Liu Y, Sugrue T, Dubey C, Nkosi M, Pritchard CEJ, Huijbers IJ, Segat GC, Alonso-Moreno S, Serracanta E, Belver L, Ferrando AA, Ciriello G, Weng AP, Koch U, Radtke F. Tcf1 is essential for initiation of oncogenic Notch1-driven chromatin topology in T-ALL. Blood 2022;139(16):2483-2498
  13. Arizmendi Cárdenas YO, Neuenschwander S, Malaspinas AS. Benchmarking metagenomics classifiers on ancient viral DNA: a simulation study. PeerJ 2022;10:e12784
  14. Arribas AJ, Napoli S, Cascione L, Sartori G, Barnabei L, Gaudio E, Tarantelli C, Mensah AA, Spriano F, Zucchetto A, Rossi FM, Rinaldi A, De Moura MC, Jovic S, Bordone-Pittau R, Di Veroli A, Stathis A, Cruciani G, Stussi G, Gattei V, Brown JR, Esteller M, Zucca E, Rossi D, Bertoni F. Resistance to PI3κδ inhibitors in marginal zone lymphoma can be reverted by targeting the IL-6/PDGFRA axis. Haematologica 2022
  15. Asplund O, Storm P, Chandra V, Hatem G, Ottosson-Laakso E, Mansour-Aly D, Krus U, Ibrahim H, Ahlqvist E, Tuomi T, Renström E, Korsgren O, Wierup N, Ibberson M, Solimena M, Marchetti P, Wollheim C, Artner I, Mulder H, Hansson O, Otonkoski T, Groop L, Prasad RB. Islet Gene View-a tool to facilitate islet research. Life Sci Alliance 2022;5(12):e202201376
  16. Asselta R, Paraboschi EM, Stravalaci M, Invernizzi P, Bonfanti P, Biondi A, Pagani I, Pedotti M, Doni A, Scavello F, Mapelli SN, Sironi M, Perucchini C, Varani L, Matkovic M, Cavalli A, Cesana D, Gallina P, Pedemonte N, Capurro V, Clementi N, Mancini N, Bayarri-Olmos R, Garred P, Rappuoli R, Duga S, Bottazzi B, Uguccioni M, Vicenzi E, Mantovani A, Garlanda C. Reply to: Hultström et al., Genetic determinants of mannose-binding lectin activity predispose to thromboembolic complications in critical COVID-19. Mannose-binding lectin genetics in COVID-19. Nat Immunol 2022;23(6):865-867
  17. Auer TO, Álvarez-Ocaña R, Cruchet S, Benton R, Arguello JR. Copy number changes in co-expressed odorant receptor genes enable selection for sensory differences in drosophilid species. Nat Ecol Evol 2022
  18. Auwerx C, Lepamets M, Sadler MC, Patxot M, Stojanov M, Baud D, Mägi R, Estonian Biobank Research Team, Porcu E, Reymond A, Kutalik Z. The individual and global impact of copy-number variants on complex human traits. Am J Hum Genet 2022;109(4):647-668
  19. Auwerx C, Sadler MC, Reymond A, Kutalik Z. From pharmacogenetics to pharmaco-omics: Milestones and future directions. HGG Adv 2022;3(2):100100
  20. Babrak L, Marquez S, Busse CE, Lees WD, Miho E, Ohlin M, Rosenfeld AM, Stervbo U, Watson CT, Schramm CA, AIRR Community. Adaptive Immune Receptor Repertoire (AIRR) Community Guide to TR and IG Gene Annotation. Methods Mol Biol 2022;2453:279-296
  21. Babrak LM, Smakaj E, Agac T, Asprion PM, Grimberg F, der Werf DV, van Ginkel EW, Tosoni DD, Clay I, Degen M, Brodbeck D, Natali E, Schkommodau E, Miho E. RWD-Cockpit: Application for Quality Assessment of Real-World Data. JMIR Form Res 2022
  22. Bady P, Marosi C, Weller M, Grønberg BH, Schultz H, Taphoorn MJB, Gijtenbeek JMM, van den Bent MJ, von Deimling A, Stupp R, Malmström A, Hegi ME. DNA methylation-based age acceleration observed in IDH wild-type glioblastoma is associated with better outcome-including in elderly patients. Acta Neuropathol Commun 2022;10(1):39
  23. Bagutti C, Alt Hug M, Heim P, Maurer Pekerman L, Ilg Hampe E, Hübner P, Fuchs S, Savic M, Stadler T, Topolsky I, Icer Baykal P, Dreifuss D, Beerenwinkel N, Tschudin Sutter S. Wastewater monitoring of SARS-CoV-2 shows high correlation with COVID-19 case numbers and allowed early detection of the first confirmed B.1.1.529 infection in Switzerland: results of an observational surveillance study. Swiss Med Wkly 2022;152:w30202
  24. Bai Y, Caussinus E, Leo S, Bosshardt F, Myachina F, Rot G, Robinson MD, Lehner CF. Correction to: A cis-regulatory element promoting increased transcription at low temperature in cultured ectothermic Drosophila cells. BMC Genomics 2022;23(1):241
  25. Bakkeren E, Gül E, Huisman JS, Steiger Y, Rocker A, Hardt WD, Diard M. Impact of horizontal gene transfer on emergence and stability of cooperative virulence in Salmonella Typhimurium. Nat Commun 2022;13(1):1939
  26. Bansal P, Morgat A, Axelsen KB, Muthukrishnan V, Coudert E, Aimo L, Hyka-Nouspikel N, Gasteiger E, Kerhornou A, Neto TB, Pozzato M, Blatter MC, Ignatchenko A, Redaschi N, Bridge A. Rhea, the reaction knowledgebase in 2022. Nucleic Acids Res 2022;50(d1):D693-D700
  27. Bao K, Claesson R, Gehrig P, Grossmann J, Oscarsson J, Belibasakis GN. Proteomic Characterization of the Oral Pathogen Filifactor alocis Reveals Key Inter-Protein Interactions of Its RTX Toxin: FtxA. Pathogens 2022;11(5):590
  28. Baranasic D, Hörtenhuber M, Balwierz PJ, Zehnder T, Mukarram AK, Nepal C, Várnai C, Hadzhiev Y, Jimenez-Gonzalez A, Li N, Wragg J, D'Orazio FM, Relic D, Pachkov M, Díaz N, Hernández-Rodríguez B, Chen Z, Stoiber M, Dong M, Stevens I, Ross SE, Eagle A, Martin R, Obasaju O, Rastegar S, McGarvey AC, Kopp W, Chambers E, Wang D, Kim HR, Acemel RD, Naranjo S, Łapiński M, Chong V, Mathavan S, Peers B, Sauka-Spengler T, Vingron M, Carninci P, Ohler U, Lacadie SA, Burgess SM, Winata C, van Eeden F, Vaquerizas JM, Gómez-Skarmeta JL, Onichtchouk D, Brown BJ, Bogdanovic O, van Nimwegen E, Westerfield M, Wardle FC, Daub CO, Lenhard B, Müller F. Multiomic atlas with functional stratification and developmental dynamics of zebrafish cis-regulatory elements. Nat Genet 2022;54(7):1037-1050
  29. Barrat-Charlaix P, Vaughan TG, Neher RA. TreeKnit: Inferring ancestral reassortment graphs of influenza viruses. PLoS Comput Biol 2022;18(8):e1010394
  30. Barreto de Albuquerque J, Altenburger LM, Abe J, von Werdt D, Wissmann S, Martínez Magdaleno J, Francisco D, van Geest G, Ficht X, Iannacone M, Bruggmann R, Mueller C, Stein JV. Microbial uptake in oral mucosa-draining lymph nodes leads to rapid release of cytotoxic CD8+ T cells lacking a gut-homing phenotype. Sci Immunol 2022;7(72):eabf1861
  31. Bauman PA, Doxey AC, Eberini I, Islamovic E, Jungo F, Kessenich C, Kough J, Krishan M, Palazzolo L, Privalle L, Rodriguez CE, Satchell KJF, Silvanovich A, Pereira Mouriès L. "From Protein Toxins to Applied Toxicological Testing" virtual workshop identifies the need for a bioinformatic framework to assess novel food protein safety. Regul Toxicol Pharmacol 2022;131:105146
  32. Beber ME, Gollub MG, Mozaffari D, Shebek KM, Flamholz AI, Milo R, Noor E. eQuilibrator 3.0: a database solution for thermodynamic constant estimation. Nucleic Acids Res 2022;50(d1):D603-D609
  33. Bernier-Latmani J, Cisarovsky C, Mahfoud S, Ragusa S, Dupanloup I, Barras D, Renevey F, Nassiri S, Anderle P, Squadrito M, Siegert S, Davanture S, González-Loyola A, Fournier N, Luther S, Benedito R, Valet P, Zhou B, De Palma M, Delorenzi M, Sempoux C, Petrova T. Apelin-driven endothelial cell migration sustains intestinal progenitor cells and tumor growth Nat Cardiovasc Res 2022;1(5):476-490
  34. Bernier-Latmani J, Cisarovsky C, Mahfoud S, Ragusa S, Dupanloup I, Barras D, Renevey F, Nassiri S, Anderle P, Squadrito ML, Siegert S, Davanture S, González-Loyola A, Fournier N, Luther SA, Benedito R, Valet P, Zhou B, De Palma M, Delorenzi M, Sempoux C, Petrova TV. Apelin-driven endothelial cell migration sustains intestinal progenitor cells and tumor growth. Nat Cardiovasc Res 2022;1(5):476-490
  35. Bernier-Latmani J, Mauri C, Marcone R, Renevey F, Durot S, He L, Vanlandewijck M, Maclachlan C, Davanture S, Zamboni N, Knott GW, Luther SA, Betsholtz C, Delorenzi M, Brisken C, Petrova TV. ADAMTS18+ villus tip telocytes maintain a polarized VEGFA signaling domain and fenestrations in nutrient-absorbing intestinal blood vessels. Nat Commun 2022;13(1):3983
  36. Bertolini A, Prummer M, Tuncel MA, Menzel U, Rosano-González ML, Kuipers J, Stekhoven DJ, Tumor Profiler consortium, Beerenwinkel N, Singer F. scAmpi-A versatile pipeline for single-cell RNA-seq analysis from basics to clinics. PLoS Comput Biol 2022;18(6):e1010097
  37. Bettini E, Stahl SM, De Martin S, Mattarei A, Sgrignani J, Carignani C, Nola S, Locatelli P, Pappagallo M, Inturrisi CE, Bifari F, Cavalli A, Alimonti A, Pani L, Fava M, Traversa S, Folli F, Manfredi PL. Pharmacological Comparative Characterization of REL-1017 (Esmethadone-HCl) and Other NMDAR Channel Blockers in Human Heterodimeric N-Methyl-D-Aspartate Receptors. Pharmaceuticals (Basel) 2022;15(8):997
  38. Bianco G, Coto-Llerena M, Gallon J, Kancherla V, Taha-Mehlitz S, Marinucci M, Konantz M, Srivatsa S, Montazeri H, Panebianco F, Tirunagaru VG, De Menna M, Paradiso V, Ercan C, Dahmani A, Montaudon E, Beerenwinkel N, Kruithof-de Julio M, Terracciano LM, Lengerke C, Jeselsohn RM, Doebele RC, Bidard FC, Marangoni E, Ng CKY, Piscuoglio S. GATA3 and MDM2 are synthetic lethal in estrogen receptor-positive breast cancers. Commun Biol 2022;5(1):373
  39. Bianco G, Coto-Llerena M, Gallon J, Kancherla V, Taha-Mehlitz S, Marinucci M, Konantz M, Srivatsa S, Montazeri H, Panebianco F, Tirunagaru VG, De Menna M, Paradiso V, Ercan C, Dahmani A, Montaudon E, Beerenwinkel N, Kruithof-de Julio M, Terracciano LM, Lengerke C, Jeselsohn RM, Doebele RC, Bidard FC, Marangoni E, Ng CKY, Piscuoglio S. Author Correction: GATA3 and MDM2 are synthetic lethal in estrogen receptor-positive breast cancers. Commun Biol 2022;5(1):658
  40. Bick AG, Popadin K, Thorball CW, Uddin MM, Zanni MV, Yu B, Cavassini M, Rauch A, Tarr P, Schmid P, Bernasconi E, Günthard HF, Libby P, Boerwinkle E, McLaren PJ, Ballantyne CM, Grinspoon S, Natarajan P, Fellay J, Swiss HIV Cohort Study. Increased prevalence of clonal hematopoiesis of indeterminate potential amongst people living with HIV. Sci Rep 2022;12(1):577
  41. Bick AG, Popadin K, Thorball CW, Uddin MM, Zanni MV, Yu B, Cavassini M, Rauch A, Tarr P, Schmid P, Bernasconi E, Günthard HF, Libby P, Boerwinkle E, McLaren PJ, Ballantyne CM, Grinspoon S, Natarajan P, Fellay J, Swiss HIV Cohort Study. Author Correction: Increased prevalence of clonal hematopoiesis of indeterminate potential amongst people living with HIV. Sci Rep 2022;12(1):11638
  42. Bidgood SR, Samolej J, Novy K, Collopy A, Albrecht D, Krause M, Burden JJ, Wollscheid B, Mercer J. Poxviruses package viral redox proteins in lateral bodies and modulate the host oxidative response. PLoS Pathog 2022;18(7):e1010614
  43. Biermann J, Melms JC, Amin AD, Wang Y, Caprio LA, Karz A, Tagore S, Barrera I, Ibarra-Arellano MA, Andreatta M, Fullerton BT, Gretarsson KH, Sahu V, Mangipudy VS, Nguyen TTT, Nair A, Rogava M, Ho P, Koch PD, Banu M, Humala N, Mahajan A, Walsh ZH, Shah SB, Vaccaro DH, Caldwell B, Mu M, Wünnemann F, Chazotte M, Berhe S, Luoma AM, Driver J, Ingham M, Khan SA, Rapisuwon S, Slingluff CL, Eigentler T, Röcken M, Carvajal R, Atkins MB, Davies MA, Agustinus A, Bakhoum SF, Azizi E, Siegelin M, Lu C, Carmona SJ, Hibshoosh H, Ribas A, Canoll P, Bruce JN, Bi WL, Agrawal P, Schapiro D, Hernando E, Macosko EZ, Chen F, Schwartz GK, Izar B. Dissecting the treatment-naive ecosystem of human melanoma brain metastasis. Cell 2022;185(14):2591-2608.e30
  44. Billault-Chaumartin I, Michon L, Anderson CA, Yde SE, Suarez C, Iwaszkiewicz J, Zoete V, Kovar DR, Martin SG. Actin assembly requirements of the formin Fus1 to build the fusion focus. J Cell Sci 2022;135(13):jcs260289
  45. Bilous M, Tran L, Cianciaruso C, Gabriel A, Michel H, Carmona SJ, Pittet MJ, Gfeller D. Metacells untangle large and complex single-cell transcriptome networks. BMC Bioinformatics 2022;23(1):336
  46. Bojar D, Lisacek F. Glycoinformatics in the Artificial Intelligence Era. Chem Rev 2022
  47. Boonen RACM, Wiegant WW, Celosse N, Vroling B, Heijl S, Kote-Jarai Z, Mijuskovic M, Cristea S, Solleveld-Westerink N, van Wezel T, Beerenwinkel N, Eeles R, Devilee P, Vreeswijk MPG, Marra G, van Attikum H. Functional Analysis Identifies Damaging CHEK2 Missense Variants Associated with Increased Cancer Risk. Cancer Res 2022;82(4):615-631
  48. Bourguignon L, Tong B, Geisler F, Schubert M, Röhrich F, Saur M, Weidner N, Rupp R, Kalke YB, Abel R, Maier D, Grassner L, Chhabra HS, Liebscher T, Cragg JJ, EMSCI study group, Kramer J, Curt A, Jutzeler CR. International surveillance study in acute spinal cord injury confirms viability of multinational clinical trials. BMC Med 2022;20(1):225
  49. Boyd BM, Nguyen NP, Allen JM, Waterhouse RM, Vo KB, Sweet AD, Clayton DH, Bush SE, Shapiro MD, Johnson KP. Long-distance dispersal of pigeons and doves generated new ecological opportunities for host-switching and adaptive radiation by their parasites. Proc Biol Sci 2022;289(1970):20220042
  50. Bragina ME, Daina A, Perez MAS, Michielin O, Zoete V. The SwissSimilarity 2021 Web Tool: Novel Chemical Libraries and Additional Methods for an Enhanced Ligand-Based Virtual Screening Experience. Int J Mol Sci 2022;23(2):811
  51. Braunstein L, Brüningk SC, Rivens I, Civale J, Haar GT. Characterization of Acoustic, Cavitation, and Thermal Properties of Poly(vinyl alcohol) Hydrogels for Use as Therapeutic Ultrasound Tissue Mimics. Ultrasound Med Biol 2022;48(6):1095-1109
  52. Breda J, Banerjee A, Jayachandran R, Pieters J, Zavolan M. A novel approach to single-cell analysis reveals intrinsic differences in immune marker expression in unstimulated BALB/c and C57BL/6 macrophages. FEBS Lett 2022
  53. Briand S, Dessimoz C, El-Mabrouk N, Nevers Y. A Linear Time Solution to the Labeled Robinson-Foulds Distance Problem. Syst Biol 2022:syac028
  54. Brümmer A, Dreos R, Marques AC, Bergmann S. Analysis of Eukaryotic lincRNA Sequences Indicates Signatures of Hindered Translation Linked to Selection Pressure. Mol Biol Evol 2022;39(2):msab356
  55. Bruschi M, Cavalli A, Moll S, Candiano G, Scapozza L, Patel JJ, Tan JC, Lo KC, Angeletti A, Ghiggeri GM, Prunotto M. Discovery of anti-Formin-like 1 protein (FMNL1) antibodies in membranous nephropathy and other glomerular diseases. Sci Rep 2022;12(1):13659
  56. Bues J, Biočanin M, Pezoldt J, Dainese R, Chrisnandy A, Rezakhani S, Saelens W, Gardeux V, Gupta R, Sarkis R, Russeil J, Saeys Y, Amstad E, Claassen M, Lutolf MP, Deplancke B. Deterministic scRNA-seq captures variation in intestinal crypt and organoid composition. Nat Methods 2022;19(3):323-330
  57. Buhre C, Born J, Wiedemann N, Cossio M, Brändle G, Leidermann K, Aujayeb A, Rieck B, Bogwardt K. ACCELERATING COVID-19 DIFFERENTIAL DIAGNOSISWITH EXPLAINABLE ULTRASOUND IMAGE ANALYSIS: AN AI TOOL Ultrasound Med Biol 2022;48(1):S1-S1
  58. Burja B, Paul D, Tastanova A, Edalat SG, Gerber R, Houtman M, Elhai M, Bürki K, Staeger R, Restivo G, Lang R, Sodin-Semrl S, Lakota K, Tomšič M, Levesque MP, Distler O, Rotar Ž, Robinson MD, Frank-Bertoncelj M. An Optimized Tissue Dissociation Protocol for Single-Cell RNA Sequencing Analysis of Fresh and Cultured Human Skin Biopsies. Front Cell Dev Biol 2022;10:872688
  59. Burzan N, Murad Lima R, Frutschi M, Janowczyk A, Reddy B, Rance A, Diomidis N, Bernier-Latmani R. Growth and Persistence of an Aerobic Microbial Community in Wyoming Bentonite MX-80 Despite Anoxic in situ Conditions. Front Microbiol 2022;13:858324
  60. Caduff L, Dreifuss D, Schindler T, Devaux AJ, Ganesanandamoorthy P, Kull A, Stachler E, Fernandez-Cassi X, Beerenwinkel N, Kohn T, Ort C, Julian TR. Inferring transmission fitness advantage of SARS-CoV-2 variants of concern from wastewater samples using digital PCR, Switzerland, December 2020 through March 2021. Euro Surveill 2022;27(10)
  61. Cano AV, Rozhoňová H, Stoltzfus A, McCandlish DM, Payne JL. Mutation bias shapes the spectrum of adaptive substitutions. Proc Natl Acad Sci U S A 2022;119(7):e2119720119
  62. Casadei L, Sarchet P, de Faria FCC, Calore F, Nigita G, Tahara S, Cascione L, Wabitsch M, Hornicek FJ, Grignol V, Croce CM, Pollock RE. In situ hybridization to detect DNA amplification in extracellular vesicles. J Extracell Vesicles 2022;11(9):e12251
  63. Cascino P, Nevone A, Piscitelli M, Scopelliti C, Girelli M, Mazzini G, Caminito S, Russo G, Milani P, Basset M, Foli A, Fazio F, Casarini S, Massa M, Bozzola M, Ripepi J, Sesta MA, Acquafredda G, De Cicco M, Moretta A, Rognoni P, Milan E, Ricagno S, Lavatelli F, Petrucci MT, Miho E, Klersy C, Merlini G, Palladini G, Nuvolone M. Single-molecule real-time sequencing of the M protein: Toward personalized medicine in monoclonal gammopathies. Am J Hematol 2022
  64. Chakraborty D, Guinat C, Müller NF, Briand FX, Andraud M, Scoizec A, Lebouquin S, Niqueux E, Schmitz A, Grasland B, Guerin JL, Paul MC, Vergne T. Phylodynamic analysis of the highly pathogenic avian influenza H5N8 epidemic in France, 2016-2017. Transbound Emerg Dis 2022
  65. Chen C, Nadeau S, Topolsky I, Beerenwinkel N, Stadler T. Advancing genomic epidemiology by addressing the bioinformatics bottleneck: Challenges, design principles, and a Swiss example. Epidemics 2022;39:100576
  66. Chen W, Guillaume-Gentil O, Rainer PY, Gäbelein CG, Saelens W, Gardeux V, Klaeger A, Dainese R, Zachara M, Zambelli T, Vorholt JA, Deplancke B. Live-seq enables temporal transcriptomic recording of single cells. Nature 2022;608(7924):733-740
  67. Chilà R, Chiappa M, Guffanti F, Panini N, Conconi D, Rinaldi A, Cascione L, Bertoni F, Fratelli M, Damia G. Stable CDK12 Knock-Out Ovarian Cancer Cells Do Not Show Increased Sensitivity to Cisplatin and PARP Inhibitor Treatment. Front Oncol 2022;12:903536
  68. Colavin A, Atolia E, Bitbol AF, Huang KC. Extracting phylogenetic dimensions of coevolution reveals hidden functional signals. Sci Rep 2022;12(1):820
  69. Collado-Vides J, Gaudet P, de Lorenzo V. Missing Links Between Gene Function and Physiology in Genomics. Front Physiol 2022;13:815874
  70. Collins RL, Glessner JT, Porcu E, Lepamets M, Brandon R, Lauricella C, Han L, Morley T, Niestroj LM, Ulirsch J, Everett S, Howrigan DP, Boone PM, Fu J, Karczewski KJ, Kellaris G, Lowther C, Lucente D, Mohajeri K, Nõukas M, Nuttle X, Samocha KE, Trinh M, Ullah F, Võsa U, Epi25 Consortium, Estonian Biobank Research Team, Hurles ME, Aradhya S, Davis EE, Finucane H, Gusella JF, Janze A, Katsanis N, Matyakhina L, Neale BM, Sanders D, Warren S, Hodge JC, Lal D, Ruderfer DM, Meck J, Mägi R, Esko T, Reymond A, Kutalik Z, Hakonarson H, Sunyaev S, Brand H, Talkowski ME. A cross-disorder dosage sensitivity map of the human genome. Cell 2022;185(16):3041-3055.e25
  71. Cortés Rodríguez F, Dal Peraro M, Abriata LA. Online tools to easily build virtual molecular models for display in augmented and virtual reality on the web. J Mol Graph Model 2022;114:108164
  72. Coto-Llerena M, Benjak A, Gallon J, Meier MA, Boldanova T, Terracciano LM, Ng CKY, Piscuoglio S. Circulating Cell-Free DNA Captures the Intratumor Heterogeneity in Multinodular Hepatocellular Carcinoma. JCO Precis Oncol 2022;6:e2100335
  73. Cristinelli S, Angelino P, Ciuffi A. Exploring m6A and m5C Epitranscriptomes upon Viral Infection: an Example with HIV. J Vis Exp 2022(181)
  74. Cumer T, Machado AP, Dumont G, Bontzorlos V, Ceccherelli R, Charter M, Dichmann K, Kassinis N, Lourenço R, Manzia F, Martens HD, Prévost L, Rakovic M, Roque I, Siverio F, Roulin A, Goudet J. Landscape and Climatic Variations Shaped Secondary Contacts amid Barn Owls of the Western Palearctic. Mol Biol Evol 2022;39(1):msab343
  75. Cummings TFM, Gori K, Sanchez-Pulido L, Gavriilidis G, Moi D, Wilson AR, Murchison E, Dessimoz C, Ponting CP, Christophorou MA. Citrullination Was Introduced into Animals by Horizontal Gene Transfer from Cyanobacteria. Mol Biol Evol 2022;39(2):msab317
  76. Cuny AP, Tanuj Sapra K, Martinez-Martin D, Fläschner G, Adams JD, Martin S, Gerber C, Rudolf F, Müller DJ. High-resolution mass measurements of single budding yeast reveal linear growth segments. Nat Commun 2022;13(1):3483
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