Publications for 2020

2020

Bacterial contribution to genesis of the novel germ line determinant oskar.
Blondel L, Jones TEM, Extavour CG. eLife Volume 9 (2020) DOI: 10.7554/elife.45539
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Sampling bias and model choice in continuous phylogeography: getting lost on a random walk
Kalkauskas A, Perron U, Sun Y, Goldman N, Baele G, Guindon S, De Maio N. Preprint DOI: 10.1101/2020.02.18.954057
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The genomic basis of animal origins: a chromosomal perspective from the sponge Ephydatia muelleri
Kenny NJ, Francis WR, Rivera-Vicéns RE, Juravel K, de Mendoza A, Díez-Vives C, Lister R, Bezares-Calderon L, Grombacher L, Roller M, Barlow LD, Camilli S, Ryan JF, Wörheide G, Hill AL, Riesgo A, Leys SP. Preprint DOI: 10.1101/2020.02.18.954784
Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression.
Cuomo ASE, Seaton DD, McCarthy DJ, Martinez I, Bonder MJ, Garcia-Bernardo J, Amatya S, Madrigal P, Isaacson A, Buettner F, Knights A, Natarajan KN, HipSci Consortium, Vallier L, Marioni JC, Chhatriwala M, Stegle O. Nature communications Volume 11 (2020) p.810 DOI: 10.1038/s41467-020-14457-z
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The Omics Discovery REST interface
Dass G, Vu M, Xu P, Audain E, Hitz M, Hermjakob H, Perez-Riverol Y. Preprint DOI: 10.1101/2020.02.10.939967
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Metagenomics workflow for hybrid assembly, differential coverage binning, transcriptomics and pathway analysis (MUFFIN)
Van Damme R, Hölzer M, Viehweger A, Müller B, Bongcam-Rudloff E, Brandt C. Preprint DOI: 10.1101/2020.02.08.939843
Eleven grand challenges in single-cell data science.
Lähnemann D, Köster J, Szczurek E, McCarthy DJ, Hicks SC, Robinson MD, Vallejos CA, Campbell KR, Beerenwinkel N, Mahfouz A, Pinello L, Skums P, Stamatakis A, Attolini CS, Aparicio S, Baaijens J, Balvert M, Barbanson B, Cappuccio A, Corleone G, Dutilh BE, Florescu M, Guryev V, Holmer R, Jahn K, Lobo TJ, Keizer EM, Khatri I, Kielbasa SM, Korbel JO, Kozlov AM, Kuo TH, Lelieveldt BPF, Mandoiu II, Marioni JC, Marschall T, Mölder F, Niknejad A, Raczkowski L, Reinders M, Ridder J, Saliba AE, Somarakis A, Stegle O, Theis FJ, Yang H, Zelikovsky A, McHardy AC, Raphael BJ, Shah SP, Schönhuth A. Genome biology Volume 21 (2020) p.31 DOI: 10.1186/s13059-020-1926-6
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Freshwater monitoring by nanopore sequencing
Urban L, Holzer A, Baronas JJ, Hall M, Braeuninger-Weimer P, Scherm MJ, Kunz DJ, Perera SN, Martin-Herranz DE, Tipper ET, Salter SJ, Stammnitz MR. Preprint DOI: 10.1101/2020.02.06.936302
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BOSS-RUNS: a flexible and practical dynamic read sampling framework for nanopore sequencing
De Maio N, Manser C, Munro R, Birney E, Loose M, Goldman N. Preprint DOI: 10.1101/2020.02.07.938670
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Analyses of non-coding somatic drivers in 2,658 cancer whole genomes.
Rheinbay E, Nielsen MM, Abascal F, Wala JA, Shapira O, Tiao G, Hornshøj H, Hess JM, Juul RI, Lin Z, Feuerbach L, Sabarinathan R, Madsen T, Kim J, Mularoni L, Shuai S, Lanzós A, Herrmann C, Maruvka YE, Shen C, Amin SB, Bandopadhayay P, Bertl J, Boroevich KA, Busanovich J, Carlevaro-Fita J, Chakravarty D, Chan CWY, Craft D, Dhingra P, Diamanti K, Fonseca NA, Gonzalez-Perez A, Guo Q, Hamilton MP, Haradhvala NJ, Hong C, Isaev K, Johnson TA, Juul M, Kahles A, Kahraman A, Kim Y, Komorowski J, Kumar K, Kumar S, Lee D, Lehmann KV, Li Y, Liu EM, Lochovsky L, Park K, Pich O, Roberts ND, Saksena G, Schumacher SE, Sidiropoulos N, Sieverling L, Sinnott-Armstrong N, Stewart C, Tamborero D, Tubio JMC, Umer HM, Uusküla-Reimand L, Wadelius C, Wadi L, Yao X, Zhang CZ, Zhang J, Haber JE, Hobolth A, Imielinski M, Kellis M, Lawrence MS, von Mering C, Nakagawa H, Raphael BJ, Rubin MA, Sander C, Stein LD, Stuart JM, Tsunoda T, Wheeler DA, Johnson R, Reimand J, Gerstein M, Khurana E, Campbell PJ, López-Bigas N, PCAWG Drivers and Functional Interpretation Working Group, PCAWG Structural Variation Working Group, Weischenfeldt J, Beroukhim R, Martincorena I, Pedersen JS, Getz G, PCAWG Consortium. Nature Volume 578 (2020) p.102-111 DOI: 10.1038/s41586-020-1965-x
High-coverage whole-genome analysis of 1220 cancers reveals hundreds of genes deregulated by rearrangement-mediated cis-regulatory alterations.
Zhang Y, Chen F, Fonseca NA, He Y, Fujita M, Nakagawa H, Zhang Z, Brazma A, PCAWG Transcriptome Working Group, PCAWG Structural Variation Working Group, Creighton CJ, PCAWG Consortium. Nature communications Volume 11 (2020) p.736 DOI: 10.1038/s41467-019-13885-w
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Genomic basis for RNA alterations in cancer.
PCAWG Transcriptome Core Group, Calabrese C, Davidson NR, Demircioğlu D, Fonseca NA, He Y, Kahles A, Lehmann KV, Liu F, Shiraishi Y, Soulette CM, Urban L, Greger L, Li S, Liu D, Perry MD, Xiang Q, Zhang F, Zhang J, Bailey P, Erkek S, Hoadley KA, Hou Y, Huska MR, Kilpinen H, Korbel JO, Marin MG, Markowski J, Nandi T, Pan-Hammarström Q, Pedamallu CS, Siebert R, Stark SG, Su H, Tan P, Waszak SM, Yung C, Zhu S, Awadalla P, Creighton CJ, Meyerson M, Ouellette BFF, Wu K, Yang H, PCAWG Transcriptome Working Group, Brazma A, Brooks AN, Göke J, Rätsch G, Schwarz RF, Stegle O, Zhang Z, PCAWG Consortium. Nature Volume 578 (2020) p.129-136 DOI: 10.1038/s41586-020-1970-0
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Pan-cancer analysis of whole genomes.
ICGC/TCGA Pan-Cancer Analysis of Whole Genomes Consortium. Nature Volume 578 (2020) p.82-93 DOI: 10.1038/s41586-020-1969-6
Genomic diversity affects the accuracy of bacterial single-nucleotide polymorphism-calling pipelines.
Bush SJ, Foster D, Eyre DW, Clark EL, De Maio N, Shaw LP, Stoesser N, Peto TEA, Crook DW, Walker AS. GigaScience Volume 9 (2020) DOI: 10.1093/gigascience/giaa007
Patient-specific logic models of signaling pathways from screenings on cancer biopsies to prioritize personalized combination therapies.
Eduati F, Jaaks P, Wappler J, Cramer T, Merten CA, Garnett MJ, Saez-Rodriguez J. Molecular systems biology Volume 16 (2020) p.e8664 DOI: 10.15252/msb.20188664
Human and mouse essentiality screens as a resource for disease gene discovery.
Cacheiro P, Muñoz-Fuentes V, Murray SA, Dickinson ME, Bucan M, Nutter LMJ, Peterson KA, Haselimashhadi H, Flenniken AM, Morgan H, Westerberg H, Konopka T, Hsu CW, Christiansen A, Lanza DG, Beaudet AL, Heaney JD, Fuchs H, Gailus-Durner V, Sorg T, Prochazka J, Novosadova V, Lelliott CJ, Wardle-Jones H, Wells S, Teboul L, Cater H, Stewart M, Hough T, Wurst W, Sedlacek R, Adams DJ, Seavitt JR, Tocchini-Valentini G, Mammano F, Braun RE, McKerlie C, Herault Y, de Angelis MH, Mallon AM, Lloyd KCK, Brown SDM, Parkinson H, Meehan TF, Smedley D, Genomics England Research Consortium, International Mouse Phenotyping Consortium. Nature communications Volume 11 (2020) p.655 DOI: 10.1038/s41467-020-14284-2
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Functional signatures of evolutionarily young CTCF binding sites
Azazi D, Mudge JM, Odom DT, Flicek P. Preprint DOI: 10.1101/2020.01.31.928119
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Synteny-guided resolution of gene trees clarifies the functional impact of whole genome duplications
Parey E, Louis A, Cabau C, Guiguen Y, Crollius HR, Berthelot C. Preprint DOI: 10.1101/2020.01.30.926915
Single-cell transcriptomics identifies CD44 as a marker and regulator of endothelial to haematopoietic transition.
Oatley M, Bölükbası ÖV, Svensson V, Shvartsman M, Ganter K, Zirngibl K, Pavlovich PV, Milchevskaya V, Foteva V, Natarajan KN, Baying B, Benes V, Patil KR, Teichmann SA, Lancrin C. Nature communications Volume 11 (2020) p.586 DOI: 10.1038/s41467-019-14171-5
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eQTL Catalogue: a compendium of uniformly processed human gene expression and splicing QTLs
Kerimov N, Hayhurst JD, Manning JR, Walter P, Kolberg L, Peikova K, Samoviča M, Burdett T, Jupp S, Parkinson H, Papatheodorou I, Zerbino DR, Alasoo K. Preprint DOI: 10.1101/2020.01.29.924266
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Genome-wide meta-analysis, fine-mapping, and integrative prioritization identify new Alzheimer's disease risk genes
Schwartzentruber J, Cooper S, Liu JZ, Barrio-Hernandez I, Bello E, Kumasaka N, Johnson T, Estrada K, Gaffney DJ, Beltrao P, Bassett A. Preprint DOI: 10.1101/2020.01.22.20018424
Extensive rewiring of the EGFR network in colorectal cancer cells expressing transforming levels of KRASG13D.
Kennedy SA, Jarboui MA, Srihari S, Raso C, Bryan K, Dernayka L, Charitou T, Bernal-Llinares M, Herrera-Montavez C, Krstic A, Matallanas D, Kotlyar M, Jurisica I, Curak J, Wong V, Stagljar I, LeBihan T, Imrie L, Pillai P, Lynn MA, Fasterius E, Al-Khalili Szigyarto C, Breen J, Kiel C, Serrano L, Rauch N, Rukhlenko O, Kholodenko BN, Iglesias-Martinez LF, Ryan CJ, Pilkington R, Cammareri P, Sansom O, Shave S, Auer M, Horn N, Klose F, Ueffing M, Boldt K, Lynn DJ, Kolch W. Nature communications Volume 11 (2020) p.499 DOI: 10.1038/s41467-019-14224-9
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Deciphering the Signaling Network Landscape of Breast Cancer Improves Drug Sensitivity Prediction
Tognetti M, Gabor A, Yang M, Cappelletti V, Windhager J, Charmpi K, de Souza N, Beyer A, Picotti P, Saez-Rodriguez J, Bodenmiller B. Preprint DOI: 10.1101/2020.01.21.907691
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Biobtree: A tool to search and map bioinformatics identifiers and special keywords
Gur T. Preprint DOI: 10.12688/f1000research.17927.4
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Phosphorylation-Dependent Assembly of a 14-3-3 Mediated Signaling Complex During Red Blood Cell Invasion by Plasmodium falciparum Merozoites
More KR, Kaur I, Gianetto QG, Invergo BM, Chaze T, Jain R, Huon C, Gutenbrunner P, Weisser H, Matondo M, Choudhary JS, Langsley G, Singh S, Chitnis CE. Preprint DOI: 10.1101/2020.01.17.911107
Microbial composition of Kombucha determined using amplicon sequencing and shotgun metagenomics.
Arıkan M, Mitchell AL, Finn RD, Gürel F. Journal of food science Volume 85 (2020) p.455-464 DOI: 10.1111/1750-3841.14992
The ELIXIR Core Data Resources: fundamental infrastructure for the life sciences.
Drysdale R, Cook CE, Petryszak R, Baillie-Gerritsen V, Barlow M, Gasteiger E, Gruhl F, Haas J, Lanfear J, Lopez R, Redaschi N, Stockinger H, Teixeira D, Venkatesan A, ELIXIR Core Data Resource Forum, Blomberg N, Durinx C, McEntyre J. Bioinformatics (Oxford, England) (2020) DOI: 10.1093/bioinformatics/btz959
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Coevolved Positions Represent Key Functional Properties in the Trypsin-Like Serine Proteases Protein Family.
Querino Lima Afonso M, da Fonseca NJ, de Oliveira LC, Lobo FP, Bleicher L. Journal of chemical information and modeling Volume 60 (2020) p.1060-1068 DOI: 10.1021/acs.jcim.9b00903
Caenorhabditis elegans phosphatase complexes in UniProtKB and Complex Portal.
Bye-A-Jee H, Zaru R, Magrane M, Orchard S, UniProt Consortium. The FEBS journal (2020) DOI: 10.1111/febs.15213
The DNA polymerases of Drosophila melanogaster.
Marygold SJ, Attrill H, Speretta E, Warner K, Magrane M, Berloco M, Cotterill S, McVey M, Rong Y, Yamaguchi M. Fly (2020) p.1-13 DOI: 10.1080/19336934.2019.1710076
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Generalized calibration across LC-setups for generic prediction of small molecule retention times
Bouwmeester R, Martens L, Degroeve S. Preprint DOI: 10.1101/2020.01.14.905844
Quantifying HIV transmission flow between high-prevalence hotspots and surrounding communities: a population-based study in Rakai, Uganda.
Ratmann O, Kagaayi J, Hall M, Golubchick T, Kigozi G, Xi X, Wymant C, Nakigozi G, Abeler-Dörner L, Bonsall D, Gall A, Hoppe A, Kellam P, Bazaale J, Kalibbala S, Laeyendecker O, Lessler J, Nalugoda F, Chang LW, de Oliveira T, Pillay D, Quinn TC, Reynolds SJ, Spencer SEF, Ssekubugu R, Serwadda D, Wawer MJ, Gray RH, Fraser C, Grabowski MK, Rakai Health Sciences Program and the Pangea HIV Consortium. The lancet. HIV (2020) DOI: 10.1016/s2352-3018(19)30378-9
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Drug mechanism-of-action discovery through the integration of pharmacological and CRISPR screens
Gonçalves E, Segura-Cabrera A, Pacini C, Picco G, Behan FM, Jaaks P, Coker EA, van der Meer D, Barthorpe A, Lightfoot H, Leach AR, Lynch JT, Sidders B, Crafter C, Iorio F, Fawell S, Garnett MJ, GDSC Screening Team. Preprint DOI: 10.1101/2020.01.14.905729
High-throughput discovery of genetic determinants of circadian misalignment.
Zhang T, Xie P, Dong Y, Liu Z, Zhou F, Pan D, Huang Z, Zhai Q, Gu Y, Wu Q, Tanaka N, Obata Y, Bradley A, Lelliott CJ, Sanger Institute Mouse Genetics Project, Nutter LMJ, McKerlie C, Flenniken AM, Champy MF, Sorg T, Herault Y, Angelis MH, Durner VG, Mallon AM, Brown SDM, Meehan T, Parkinson HE, Smedley D, Lloyd KCK, Yan J, Gao X, Seong JK, Wang CL, Sedlacek R, Liu Y, Rozman J, Yang L, Xu Y. PLoS genetics Volume 16 (2020) p.e1008577 DOI: 10.1371/journal.pgen.1008577
Clustered CTCF binding is an evolutionary mechanism to maintain topologically associating domains.
Kentepozidou E, Aitken SJ, Feig C, Stefflova K, Ibarra-Soria X, Odom DT, Roller M, Flicek P. Genome biology Volume 21 (2020) p.5 DOI: 10.1186/s13059-019-1894-x
Evolutionary superscaffolding and chromosome anchoring to improve Anopheles genome assemblies.
Waterhouse RM, Aganezov S, Anselmetti Y, Lee J, Ruzzante L, Reijnders MJMF, Feron R, Bérard S, George P, Hahn MW, Howell PI, Kamali M, Koren S, Lawson D, Maslen G, Peery A, Phillippy AM, Sharakhova MV, Tannier E, Unger MF, Zhang SV, Alekseyev MA, Besansky NJ, Chauve C, Emrich SJ, Sharakhov IV. BMC biology Volume 18 (2020) p.1 DOI: 10.1186/s12915-019-0728-3
The Monarch Initiative in 2019: an integrative data and analytic platform connecting phenotypes to genotypes across species.
Shefchek KA, Harris NL, Gargano M, Matentzoglu N, Unni D, Brush M, Keith D, Conlin T, Vasilevsky N, Zhang XA, Balhoff JP, Babb L, Bello SM, Blau H, Bradford Y, Carbon S, Carmody L, Chan LE, Cipriani V, Cuzick A, Rocca MD, Dunn N, Essaid S, Fey P, Grove C, Gourdine JP, Hamosh A, Harris M, Helbig I, Hoatlin M, Joachimiak M, Jupp S, Lett KB, Lewis SE, McNamara C, Pendlington ZM, Pilgrim C, Putman T, Ravanmehr V, Reese J, Riggs E, Robb S, Roncaglia P, Seager J, Segerdell E, Similuk M, Storm AL, Thaxon C, Thessen A, Jacobsen JOB, McMurry JA, Groza T, Köhler S, Smedley D, Robinson PN, Mungall CJ, Haendel MA, Munoz-Torres MC, Osumi-Sutherland D. Nucleic acids research Volume 48 (2020) p.D704-D715 DOI: 10.1093/nar/gkz997
PDBe: improved findability of macromolecular structure data in the PDB.
Armstrong DR, Berrisford JM, Conroy MJ, Gutmanas A, Anyango S, Choudhary P, Clark AR, Dana JM, Deshpande M, Dunlop R, Gane P, Gáborová R, Gupta D, Haslam P, Koča J, Mak L, Mir S, Mukhopadhyay A, Nadzirin N, Nair S, Paysan-Lafosse T, Pravda L, Sehnal D, Salih O, Smart O, Tolchard J, Varadi M, Svobodova-Vařeková R, Zaki H, Kleywegt GJ, Velankar S. Nucleic acids research Volume 48 (2020) p.D335-D343 DOI: 10.1093/nar/gkz990
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PDBe-KB: a community-driven resource for structural and functional annotations.
PDBe-KB consortium . Nucleic acids research Volume 48 (2020) p.D344-D353 DOI: 10.1093/nar/gkz853
IPD-IMGT/HLA Database.
Robinson J, Barker DJ, Georgiou X, Cooper MA, Flicek P, Marsh SGE. Nucleic acids research Volume 48 (2020) p.D948-D955 DOI: 10.1093/nar/gkz950
Genome3D: integrating a collaborative data pipeline to expand the depth and breadth of consensus protein structure annotation.
Sillitoe I, Andreeva A, Blundell TL, Buchan DWA, Finn RD, Gough J, Jones D, Kelley LA, Paysan-Lafosse T, Lam SD, Murzin AG, Pandurangan AP, Salazar GA, Skwark MJ, Sternberg MJE, Velankar S, Orengo C. Nucleic acids research Volume 48 (2020) p.D314-D319 DOI: 10.1093/nar/gkz967
Expression Atlas update: from tissues to single cells.
Papatheodorou I, Moreno P, Manning J, Fuentes AM, George N, Fexova S, Fonseca NA, Füllgrabe A, Green M, Huang N, Huerta L, Iqbal H, Jianu M, Mohammed S, Zhao L, Jarnuczak AF, Jupp S, Marioni J, Meyer K, Petryszak R, Prada Medina CA, Talavera-López C, Teichmann S, Vizcaino JA, Brazma A. Nucleic acids research Volume 48 (2020) p.D77-D83 DOI: 10.1093/nar/gkz947
Plant Reactome: a knowledgebase and resource for comparative pathway analysis.
Naithani S, Gupta P, Preece J, D'Eustachio P, Elser JL, Garg P, Dikeman DA, Kiff J, Cook J, Olson A, Wei S, Tello-Ruiz MK, Mundo AF, Munoz-Pomer A, Mohammed S, Cheng T, Bolton E, Papatheodorou I, Stein L, Ware D, Jaiswal P. Nucleic acids research Volume 48 (2020) p.D1093-D1103 DOI: 10.1093/nar/gkz996
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Alliance of Genome Resources Portal: unified model organism research platform.
Alliance of Genome Resources Consortium . Nucleic acids research Volume 48 (2020) p.D650-D658 DOI: 10.1093/nar/gkz813
Ensembl 2020.
Yates AD, Achuthan P, Akanni W, Allen J, Allen J, Alvarez-Jarreta J, Amode MR, Armean IM, Azov AG, Bennett R, Bhai J, Billis K, Boddu S, Marugán JC, Cummins C, Davidson C, Dodiya K, Fatima R, Gall A, Giron CG, Gil L, Grego T, Haggerty L, Haskell E, Hourlier T, Izuogu OG, Janacek SH, Juettemann T, Kay M, Lavidas I, Le T, Lemos D, Martinez JG, Maurel T, McDowall M, McMahon A, Mohanan S, Moore B, Nuhn M, Oheh DN, Parker A, Parton A, Patricio M, Sakthivel MP, Abdul Salam AI, Schmitt BM, Schuilenburg H, Sheppard D, Sycheva M, Szuba M, Taylor K, Thormann A, Threadgold G, Vullo A, Walts B, Winterbottom A, Zadissa A, Chakiachvili M, Flint B, Frankish A, Hunt SE, IIsley G, Kostadima M, Langridge N, Loveland JE, Martin FJ, Morales J, Mudge JM, Muffato M, Perry E, Ruffier M, Trevanion SJ, Cunningham F, Howe KL, Zerbino DR, Flicek P. Nucleic acids research Volume 48 (2020) p.D682-D688 DOI: 10.1093/nar/gkz966
The reactome pathway knowledgebase.
Jassal B, Matthews L, Viteri G, Gong C, Lorente P, Fabregat A, Sidiropoulos K, Cook J, Gillespie M, Haw R, Loney F, May B, Milacic M, Rothfels K, Sevilla C, Shamovsky V, Shorser S, Varusai T, Weiser J, Wu G, Stein L, Hermjakob H, D'Eustachio P. Nucleic acids research Volume 48 (2020) p.D498-D503 DOI: 10.1093/nar/gkz1031
PhaSepDB: a database of liquid-liquid phase separation related proteins.
You K, Huang Q, Yu C, Shen B, Sevilla C, Shi M, Hermjakob H, Chen Y, Li T. Nucleic acids research Volume 48 (2020) p.D354-D359 DOI: 10.1093/nar/gkz847
The ProteomeXchange consortium in 2020: enabling 'big data' approaches in proteomics.
Deutsch EW, Bandeira N, Sharma V, Perez-Riverol Y, Carver JJ, Kundu DJ, García-Seisdedos D, Jarnuczak AF, Hewapathirana S, Pullman BS, Wertz J, Sun Z, Kawano S, Okuda S, Watanabe Y, Hermjakob H, MacLean B, MacCoss MJ, Zhu Y, Ishihama Y, Vizcaíno JA. Nucleic acids research Volume 48 (2020) p.D1145-D1152 DOI: 10.1093/nar/gkz984
BioModels-15 years of sharing computational models in life science.
Malik-Sheriff RS, Glont M, Nguyen TVN, Tiwari K, Roberts MG, Xavier A, Vu MT, Men J, Maire M, Kananathan S, Fairbanks EL, Meyer JP, Arankalle C, Varusai TM, Knight-Schrijver V, Li L, Dueñas-Roca C, Dass G, Keating SM, Park YM, Buso N, Rodriguez N, Hucka M, Hermjakob H. Nucleic acids research Volume 48 (2020) p.D407-D415 DOI: 10.1093/nar/gkz1055
Review of Issues and Solutions to Data Analysis Reproducibility and Data Quality in Clinical Proteomics.
Walzer M, Vizcaíno JA. Methods in molecular biology (Clifton, N.J.) Volume 2051 (2020) p.345-371 DOI: 10.1007/978-1-4939-9744-2_15
MetaboLights: a resource evolving in response to the needs of its scientific community.
Haug K, Cochrane K, Nainala VC, Williams M, Chang J, Jayaseelan KV, O'Donovan C. Nucleic acids research Volume 48 (2020) p.D440-D444 DOI: 10.1093/nar/gkz1019
Ensembl Genomes 2020-enabling non-vertebrate genomic research.
Howe KL, Contreras-Moreira B, De Silva N, Maslen G, Akanni W, Allen J, Alvarez-Jarreta J, Barba M, Bolser DM, Cambell L, Carbajo M, Chakiachvili M, Christensen M, Cummins C, Cuzick A, Davis P, Fexova S, Gall A, George N, Gil L, Gupta P, Hammond-Kosack KE, Haskell E, Hunt SE, Jaiswal P, Janacek SH, Kersey PJ, Langridge N, Maheswari U, Maurel T, McDowall MD, Moore B, Muffato M, Naamati G, Naithani S, Olson A, Papatheodorou I, Patricio M, Paulini M, Pedro H, Perry E, Preece J, Rosello M, Russell M, Sitnik V, Staines DM, Stein J, Tello-Ruiz MK, Trevanion SJ, Urban M, Wei S, Ware D, Williams G, Yates AD, Flicek P. Nucleic acids research Volume 48 (2020) p.D689-D695 DOI: 10.1093/nar/gkz890
MGnify: the microbiome analysis resource in 2020.
Mitchell AL, Almeida A, Beracochea M, Boland M, Burgin J, Cochrane G, Crusoe MR, Kale V, Potter SC, Richardson LJ, Sakharova E, Scheremetjew M, Korobeynikov A, Shlemov A, Kunyavskaya O, Lapidus A, Finn RD. Nucleic acids research Volume 48 (2020) p.D570-D578 DOI: 10.1093/nar/gkz1035
PHI-base: the pathogen-host interactions database.
Urban M, Cuzick A, Seager J, Wood V, Rutherford K, Venkatesh SY, De Silva N, Martinez MC, Pedro H, Yates AD, Hassani-Pak K, Hammond-Kosack KE. Nucleic acids research Volume 48 (2020) p.D613-D620 DOI: 10.1093/nar/gkz904
The International Genome Sample Resource (IGSR) collection of open human genomic variation resources.
Fairley S, Lowy-Gallego E, Perry E, Flicek P. Nucleic acids research Volume 48 (2020) p.D941-D947 DOI: 10.1093/nar/gkz836
The European Bioinformatics Institute in 2020: building a global infrastructure of interconnected data resources for the life sciences.
Cook CE, Stroe O, Cochrane G, Birney E, Apweiler R. Nucleic acids research Volume 48 (2020) p.D17-D23 DOI: 10.1093/nar/gkz1033
WormBase: a modern Model Organism Information Resource.
Harris TW, Arnaboldi V, Cain S, Chan J, Chen WJ, Cho J, Davis P, Gao S, Grove CA, Kishore R, Lee RYN, Muller HM, Nakamura C, Nuin P, Paulini M, Raciti D, Rodgers FH, Russell M, Schindelman G, Auken KV, Wang Q, Williams G, Wright AJ, Yook K, Howe KL, Schedl T, Stein L, Sternberg PW. Nucleic acids research Volume 48 (2020) p.D762-D767 DOI: 10.1093/nar/gkz920
The European Nucleotide Archive in 2019.
Amid C, Alako BTF, Balavenkataraman Kadhirvelu V, Burdett T, Burgin J, Fan J, Harrison PW, Holt S, Hussein A, Ivanov E, Jayathilaka S, Kay S, Keane T, Leinonen R, Liu X, Martinez-Villacorta J, Milano A, Pakseresht A, Rahman N, Rajan J, Reddy K, Richards E, Smirnov D, Sokolov A, Vijayaraja S, Cochrane G. Nucleic acids research Volume 48 (2020) p.D70-D76 DOI: 10.1093/nar/gkz1063
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Amyloid Beta Hypothesis in Alzheimer's Disease: Major Culprits and Recent Therapeutic Strategies.
Vijayan D, Chandra R. Current drug targets Volume 21 (2020) p.148-166 DOI: 10.2174/1389450120666190806153206