Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation

Search Page

Filters

My NCBI Filters

Results by year

Table representation of search results timeline featuring number of search results per year.

Year Number of Results
1990 4
1991 2
1992 7
1993 3
1994 4
1995 4
1996 8
1997 9
1998 11
1999 12
2000 13
2001 13
2002 11
2003 5
2004 15
2005 20
2006 12
2007 10
2008 8
2009 13
2010 13
2011 6
2012 10
2013 7
2014 13
2015 10
2016 8
2017 11
2018 11
2019 8
2020 23
2021 15
2022 10
2023 12
2024 3

Text availability

Article attribute

Article type

Publication date

Search Results

329 results

Results by year

Filters applied: . Clear all
Page 1
Spatial landmark detection and tissue registration with deep learning.
Ekvall M, Bergenstråhle L, Andersson A, Czarnewski P, Olegård J, Käll L, Lundeberg J. Ekvall M, et al. Among authors: lundeberg j. Nat Methods. 2024 Apr;21(4):673-679. doi: 10.1038/s41592-024-02199-5. Epub 2024 Mar 4. Nat Methods. 2024. PMID: 38438615 Free PMC article.
Clonally heritable gene expression imparts a layer of diversity within cell types.
Mold JE, Weissman MH, Ratz M, Hagemann-Jensen M, Hård J, Eriksson CJ, Toosi H, Berghenstråhle J, Ziegenhain C, von Berlin L, Martin M, Blom K, Lagergren J, Lundeberg J, Sandberg R, Michaëlsson J, Frisén J. Mold JE, et al. Among authors: lundeberg j. Cell Syst. 2024 Feb 21;15(2):149-165.e10. doi: 10.1016/j.cels.2024.01.004. Epub 2024 Feb 9. Cell Syst. 2024. PMID: 38340731 Free article.
Spatial transcriptomics of B cell and T cell receptors reveals lymphocyte clonal dynamics.
Engblom C, Thrane K, Lin Q, Andersson A, Toosi H, Chen X, Steiner E, Lu C, Mantovani G, Hagemann-Jensen M, Saarenpää S, Jangard M, Saez-Rodriguez J, Michaëlsson J, Hartman J, Lagergren J, Mold JE, Lundeberg J, Frisén J. Engblom C, et al. Among authors: lundeberg j. Science. 2023 Dec 8;382(6675):eadf8486. doi: 10.1126/science.adf8486. Epub 2023 Dec 8. Science. 2023. PMID: 38060664
Comprehensive cell atlas of the first-trimester developing human brain.
Braun E, Danan-Gotthold M, Borm LE, Lee KW, Vinsland E, Lönnerberg P, Hu L, Li X, He X, Andrusivová Ž, Lundeberg J, Barker RA, Arenas E, Sundström E, Linnarsson S. Braun E, et al. Among authors: lundeberg j. Science. 2023 Oct 13;382(6667):eadf1226. doi: 10.1126/science.adf1226. Epub 2023 Oct 13. Science. 2023. PMID: 37824650
Spatial transcriptomic analysis of virtual prostate biopsy reveals confounding effect of tissue heterogeneity on genomic signatures.
Figiel S, Yin W, Doultsinos D, Erickson A, Poulose N, Singh R, Magnussen A, Anbarasan T, Teague R, He M, Lundeberg J, Loda M, Verrill C, Colling R, Gill PS, Bryant RJ, Hamdy FC, Woodcock DJ, Mills IG, Cussenot O, Lamb AD. Figiel S, et al. Among authors: lundeberg j. Mol Cancer. 2023 Oct 3;22(1):162. doi: 10.1186/s12943-023-01863-2. Mol Cancer. 2023. PMID: 37789377 Free PMC article.
Spatial multimodal analysis of transcriptomes and metabolomes in tissues.
Vicari M, Mirzazadeh R, Nilsson A, Shariatgorji R, Bjärterot P, Larsson L, Lee H, Nilsson M, Foyer J, Ekvall M, Czarnewski P, Zhang X, Svenningsson P, Käll L, Andrén PE, Lundeberg J. Vicari M, et al. Among authors: lundeberg j. Nat Biotechnol. 2023 Sep 4. doi: 10.1038/s41587-023-01937-y. Online ahead of print. Nat Biotechnol. 2023. PMID: 37667091
Expansion spatial transcriptomics.
Fan Y, Andrusivová Ž, Wu Y, Chai C, Larsson L, He M, Luo L, Lundeberg J, Wang B. Fan Y, et al. Among authors: lundeberg j. Nat Methods. 2023 Aug;20(8):1179-1182. doi: 10.1038/s41592-023-01911-1. Epub 2023 Jun 22. Nat Methods. 2023. PMID: 37349575 Free PMC article.
An integrated cell atlas of the lung in health and disease.
Sikkema L, Ramírez-Suástegui C, Strobl DC, Gillett TE, Zappia L, Madissoon E, Markov NS, Zaragosi LE, Ji Y, Ansari M, Arguel MJ, Apperloo L, Banchero M, Bécavin C, Berg M, Chichelnitskiy E, Chung MI, Collin A, Gay ACA, Gote-Schniering J, Hooshiar Kashani B, Inecik K, Jain M, Kapellos TS, Kole TM, Leroy S, Mayr CH, Oliver AJ, von Papen M, Peter L, Taylor CJ, Walzthoeni T, Xu C, Bui LT, De Donno C, Dony L, Faiz A, Guo M, Gutierrez AJ, Heumos L, Huang N, Ibarra IL, Jackson ND, Kadur Lakshminarasimha Murthy P, Lotfollahi M, Tabib T, Talavera-López C, Travaglini KJ, Wilbrey-Clark A, Worlock KB, Yoshida M; Lung Biological Network Consortium; van den Berge M, Bossé Y, Desai TJ, Eickelberg O, Kaminski N, Krasnow MA, Lafyatis R, Nikolic MZ, Powell JE, Rajagopal J, Rojas M, Rozenblatt-Rosen O, Seibold MA, Sheppard D, Shepherd DP, Sin DD, Timens W, Tsankov AM, Whitsett J, Xu Y, Banovich NE, Barbry P, Duong TE, Falk CS, Meyer KB, Kropski JA, Pe'er D, Schiller HB, Tata PR, Schultze JL, Teichmann SA, Misharin AV, Nawijn MC, Luecken MD, Theis FJ. Sikkema L, et al. Nat Med. 2023 Jun;29(6):1563-1577. doi: 10.1038/s41591-023-02327-2. Epub 2023 Jun 8. Nat Med. 2023. PMID: 37291214 Free PMC article.
Single-Cell and Spatial Transcriptomic Analysis of Human Skin Delineates Intercellular Communication and Pathogenic Cells.
Thrane K, Winge MCG, Wang H, Chen L, Guo MG, Andersson A, Abalo XM, Yang X, Kim DS, Longo SK, Soong BY, Meyers JM, Reynolds DL, McGeever A, Demircioglu D, Hasson D, Mirzazadeh R, Rubin AJ, Bae GH, Karkanias J, Rieger K, Lundeberg J, Ji AL. Thrane K, et al. Among authors: lundeberg j. J Invest Dermatol. 2023 Nov;143(11):2177-2192.e13. doi: 10.1016/j.jid.2023.02.040. Epub 2023 May 2. J Invest Dermatol. 2023. PMID: 37142187
Profiling spatiotemporal gene expression of the developing human spinal cord and implications for ependymoma origin.
Li X, Andrusivova Z, Czarnewski P, Langseth CM, Andersson A, Liu Y, Gyllborg D, Braun E, Larsson L, Hu L, Alekseenko Z, Lee H, Avenel C, Kallner HK, Åkesson E, Adameyko I, Nilsson M, Linnarsson S, Lundeberg J, Sundström E. Li X, et al. Among authors: lundeberg j. Nat Neurosci. 2023 May;26(5):891-901. doi: 10.1038/s41593-023-01312-9. Epub 2023 Apr 24. Nat Neurosci. 2023. PMID: 37095395 Free PMC article.
The spatial landscape of gene expression isoforms in tissue sections.
Lebrigand K, Bergenstråhle J, Thrane K, Mollbrink A, Meletis K, Barbry P, Waldmann R, Lundeberg J. Lebrigand K, et al. Among authors: lundeberg j. Nucleic Acids Res. 2023 May 8;51(8):e47. doi: 10.1093/nar/gkad169. Nucleic Acids Res. 2023. PMID: 36928528 Free PMC article.
Spatially resolved transcriptomic profiling of degraded and challenging fresh frozen samples.
Mirzazadeh R, Andrusivova Z, Larsson L, Newton PT, Galicia LA, Abalo XM, Avijgan M, Kvastad L, Denadai-Souza A, Stakenborg N, Firsova AB, Shamikh A, Jurek A, Schultz N, Nistér M, Samakovlis C, Boeckxstaens G, Lundeberg J. Mirzazadeh R, et al. Among authors: lundeberg j. Nat Commun. 2023 Jan 31;14(1):509. doi: 10.1038/s41467-023-36071-5. Nat Commun. 2023. PMID: 36720873 Free PMC article.
A topographic atlas defines developmental origins of cell heterogeneity in the human embryonic lung.
Sountoulidis A, Marco Salas S, Braun E, Avenel C, Bergenstråhle J, Theelke J, Vicari M, Czarnewski P, Liontos A, Abalo X, Andrusivová Ž, Mirzazadeh R, Asp M, Li X, Hu L, Sariyar S, Martinez Casals A, Ayoglu B, Firsova A, Michaëlsson J, Lundberg E, Wählby C, Sundström E, Linnarsson S, Lundeberg J, Nilsson M, Samakovlis C. Sountoulidis A, et al. Among authors: lundeberg j. Nat Cell Biol. 2023 Feb;25(2):351-365. doi: 10.1038/s41556-022-01064-x. Epub 2023 Jan 16. Nat Cell Biol. 2023. PMID: 36646791 Free PMC article.
B cell expansion hinders the stroma-epithelium regenerative cross talk during mucosal healing.
Frede A, Czarnewski P, Monasterio G, Tripathi KP, Bejarano DA, Ramirez Flores RO, Sorini C, Larsson L, Luo X, Geerlings L, Novella-Rausell C, Zagami C, Kuiper R, Morales RA, Castillo F, Hunt M, Mariano LL, Hu YOO, Engblom C, Lennon-Duménil AM, Mittenzwei R, Westendorf AM, Hövelmeyer N, Lundeberg J, Saez-Rodriguez J, Schlitzer A, Das S, Villablanca EJ. Frede A, et al. Among authors: lundeberg j. Immunity. 2022 Dec 13;55(12):2336-2351.e12. doi: 10.1016/j.immuni.2022.11.002. Epub 2022 Dec 2. Immunity. 2022. PMID: 36462502 Free article.
Spatially resolved clonal copy number alterations in benign and malignant tissue.
Erickson A, He M, Berglund E, Marklund M, Mirzazadeh R, Schultz N, Kvastad L, Andersson A, Bergenstråhle L, Bergenstråhle J, Larsson L, Alonso Galicia L, Shamikh A, Basmaci E, Díaz De Ståhl T, Rajakumar T, Doultsinos D, Thrane K, Ji AL, Khavari PA, Tarish F, Tanoglidi A, Maaskola J, Colling R, Mirtti T, Hamdy FC, Woodcock DJ, Helleday T, Mills IG, Lamb AD, Lundeberg J. Erickson A, et al. Among authors: lundeberg j. Nature. 2022 Aug;608(7922):360-367. doi: 10.1038/s41586-022-05023-2. Epub 2022 Aug 10. Nature. 2022. PMID: 35948708 Free PMC article.
SnapShot: Spatial transcriptomics.
Larsson L, Bergenstråhle L, He M, Andrusivova Z, Lundeberg J. Larsson L, et al. Among authors: lundeberg j. Cell. 2022 Jul 21;185(15):2840-2840.e1. doi: 10.1016/j.cell.2022.06.002. Cell. 2022. PMID: 35868280 Free article.
Identification of early neurodegenerative pathways in progressive multiple sclerosis.
Kaufmann M, Schaupp AL, Sun R, Coscia F, Dendrou CA, Cortes A, Kaur G, Evans HG, Mollbrink A, Navarro JF, Sonner JK, Mayer C, DeLuca GC, Lundeberg J, Matthews PM, Attfield KE, Friese MA, Mann M, Fugger L. Kaufmann M, et al. Among authors: lundeberg j. Nat Neurosci. 2022 Jul;25(7):944-955. doi: 10.1038/s41593-022-01097-3. Epub 2022 Jun 20. Nat Neurosci. 2022. PMID: 35726057
The spatial transcriptomic landscape of the healing mouse intestine following damage.
Parigi SM, Larsson L, Das S, Ramirez Flores RO, Frede A, Tripathi KP, Diaz OE, Selin K, Morales RA, Luo X, Monasterio G, Engblom C, Gagliani N, Saez-Rodriguez J, Lundeberg J, Villablanca EJ. Parigi SM, et al. Among authors: lundeberg j. Nat Commun. 2022 Feb 11;13(1):828. doi: 10.1038/s41467-022-28497-0. Nat Commun. 2022. PMID: 35149721 Free PMC article.
The discovAIR project: a roadmap towards the Human Lung Cell Atlas.
Luecken MD, Zaragosi LE, Madissoon E, Sikkema L, Firsova AB, De Domenico E, Kümmerle L, Saglam A, Berg M, Gay ACA, Schniering J, Mayr CH, Abalo XM, Larsson L, Sountoulidis A, Teichmann SA, van Eunen K, Koppelman GH, Saeb-Parsy K, Leroy S, Powell P, Sarkans U, Timens W, Lundeberg J, van den Berge M, Nilsson M, Horváth P, Denning J, Papatheodorou I, Schultze JL, Schiller HB, Barbry P, Petoukhov I, Misharin AV, Adcock IM, von Papen M, Theis FJ, Samakovlis C, Meyer KB, Nawijn MC. Luecken MD, et al. Among authors: lundeberg j. Eur Respir J. 2022 Aug 18;60(2):2102057. doi: 10.1183/13993003.02057-2021. Print 2022 Aug. Eur Respir J. 2022. PMID: 35086829 Free PMC article. Review.
Novel loss-of-function variant in DENND5A impedes melanosomal cargo transport and predisposes to familial cutaneous melanoma.
Yang M, Johnsson P, Bräutigam L, Yang XR, Thrane K, Gao J, Tobin NP, Zhou Y, Yu R, Nagy N, Engström PG, Tuominen R, Eriksson H, Lundeberg J, Tucker MA, Goldstein AM, Egyhazi-Brage S, Zhao J, Cao Y, Höiom V. Yang M, et al. Among authors: lundeberg j. Genet Med. 2022 Jan;24(1):157-169. doi: 10.1016/j.gim.2021.09.003. Epub 2021 Nov 30. Genet Med. 2022. PMID: 34906508 Free PMC article.
Genome-wide spatial expression profiling in formalin-fixed tissues.
Gracia Villacampa E, Larsson L, Mirzazadeh R, Kvastad L, Andersson A, Mollbrink A, Kokaraki G, Monteil V, Schultz N, Appelberg KS, Montserrat N, Zhang H, Penninger JM, Miesbach W, Mirazimi A, Carlson J, Lundeberg J. Gracia Villacampa E, et al. Among authors: lundeberg j. Cell Genom. 2021 Dec 8;1(3):100065. doi: 10.1016/j.xgen.2021.100065. eCollection 2021 Dec 8. Cell Genom. 2021. PMID: 36776149 Free PMC article.
Super-resolved spatial transcriptomics by deep data fusion.
Bergenstråhle L, He B, Bergenstråhle J, Abalo X, Mirzazadeh R, Thrane K, Ji AL, Andersson A, Larsson L, Stakenborg N, Boeckxstaens G, Khavari P, Zou J, Lundeberg J, Maaskola J. Bergenstråhle L, et al. Among authors: lundeberg j. Nat Biotechnol. 2022 Apr;40(4):476-479. doi: 10.1038/s41587-021-01075-3. Epub 2021 Nov 29. Nat Biotechnol. 2022. PMID: 34845373
A roadmap for the Human Developmental Cell Atlas.
Haniffa M, Taylor D, Linnarsson S, Aronow BJ, Bader GD, Barker RA, Camara PG, Camp JG, Chédotal A, Copp A, Etchevers HC, Giacobini P, Göttgens B, Guo G, Hupalowska A, James KR, Kirby E, Kriegstein A, Lundeberg J, Marioni JC, Meyer KB, Niakan KK, Nilsson M, Olabi B, Pe'er D, Regev A, Rood J, Rozenblatt-Rosen O, Satija R, Teichmann SA, Treutlein B, Vento-Tormo R, Webb S; Human Cell Atlas Developmental Biological Network. Haniffa M, et al. Among authors: lundeberg j. Nature. 2021 Sep;597(7875):196-205. doi: 10.1038/s41586-021-03620-1. Epub 2021 Sep 8. Nature. 2021. PMID: 34497388 Free PMC article.
A single-cell and spatially resolved atlas of human breast cancers.
Wu SZ, Al-Eryani G, Roden DL, Junankar S, Harvey K, Andersson A, Thennavan A, Wang C, Torpy JR, Bartonicek N, Wang T, Larsson L, Kaczorowski D, Weisenfeld NI, Uytingco CR, Chew JG, Bent ZW, Chan CL, Gnanasambandapillai V, Dutertre CA, Gluch L, Hui MN, Beith J, Parker A, Robbins E, Segara D, Cooper C, Mak C, Chan B, Warrier S, Ginhoux F, Millar E, Powell JE, Williams SR, Liu XS, O'Toole S, Lim E, Lundeberg J, Perou CM, Swarbrick A. Wu SZ, et al. Among authors: lundeberg j. Nat Genet. 2021 Sep;53(9):1334-1347. doi: 10.1038/s41588-021-00911-1. Epub 2021 Sep 6. Nat Genet. 2021. PMID: 34493872 Free PMC article.
Chronic lung diseases are associated with gene expression programs favoring SARS-CoV-2 entry and severity.
Bui LT, Winters NI, Chung MI, Joseph C, Gutierrez AJ, Habermann AC, Adams TS, Schupp JC, Poli S, Peter LM, Taylor CJ, Blackburn JB, Richmond BW, Nicholson AG, Rassl D, Wallace WA, Rosas IO, Jenkins RG, Kaminski N, Kropski JA, Banovich NE; Human Cell Atlas Lung Biological Network. Bui LT, et al. Nat Commun. 2021 Jul 14;12(1):4314. doi: 10.1038/s41467-021-24467-0. Nat Commun. 2021. PMID: 34262047 Free PMC article.
Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics.
Muus C, Luecken MD, Eraslan G, Sikkema L, Waghray A, Heimberg G, Kobayashi Y, Vaishnav ED, Subramanian A, Smillie C, Jagadeesh KA, Duong ET, Fiskin E, Torlai Triglia E, Ansari M, Cai P, Lin B, Buchanan J, Chen S, Shu J, Haber AL, Chung H, Montoro DT, Adams T, Aliee H, Allon SJ, Andrusivova Z, Angelidis I, Ashenberg O, Bassler K, Bécavin C, Benhar I, Bergenstråhle J, Bergenstråhle L, Bolt L, Braun E, Bui LT, Callori S, Chaffin M, Chichelnitskiy E, Chiou J, Conlon TM, Cuoco MS, Cuomo ASE, Deprez M, Duclos G, Fine D, Fischer DS, Ghazanfar S, Gillich A, Giotti B, Gould J, Guo M, Gutierrez AJ, Habermann AC, Harvey T, He P, Hou X, Hu L, Hu Y, Jaiswal A, Ji L, Jiang P, Kapellos TS, Kuo CS, Larsson L, Leney-Greene MA, Lim K, Litviňuková M, Ludwig LS, Lukassen S, Luo W, Maatz H, Madissoon E, Mamanova L, Manakongtreecheep K, Leroy S, Mayr CH, Mbano IM, McAdams AM, Nabhan AN, Nyquist SK, Penland L, Poirion OB, Poli S, Qi C, Queen R, Reichart D, Rosas I, Schupp JC, Shea CV, Shi X, Sinha R, Sit RV, Slowikowski K, Slyper M, Smith NP, Sountoulidis A, Strunz M, Sullivan TB, Sun D, Talavera-López C, Tan P, Tantivit J, Travaglini KJ, Tucker NR, Vernon KA, Wadsworth MH, Waldman J, Wang X, Xu K, Yan … See abstract for full author list ➔ Muus C, et al. Nat Med. 2021 Mar;27(3):546-559. doi: 10.1038/s41591-020-01227-z. Epub 2021 Mar 2. Nat Med. 2021. PMID: 33654293 Free PMC article.
The spatial RNA integrity number assay for in situ evaluation of transcriptome quality.
Kvastad L, Carlberg K, Larsson L, Villacampa EG, Stuckey A, Stenbeck L, Mollbrink A, Zamboni M, Magnusson JP, Basmaci E, Shamikh A, Prochazka G, Schaupp AL, Borg Å, Fugger L, Nistér M, Lundeberg J. Kvastad L, et al. Among authors: lundeberg j. Commun Biol. 2021 Jan 8;4(1):57. doi: 10.1038/s42003-020-01573-1. Commun Biol. 2021. PMID: 33420318 Free PMC article.
Single-Stranded Oligonucleotide-Mediated Inhibition of Respiratory Syncytial Virus Infection.
Pålsson SA, Dondalska A, Bergenstråhle J, Rolfes C, Björk A, Sedano L, Power UF, Rameix-Welti MA, Lundeberg J, Wahren-Herlenius M, Mastrangelo P, Eleouet JF, Le Goffic R, Galloux M, Spetz AL. Pålsson SA, et al. Among authors: lundeberg j. Front Immunol. 2020 Dec 8;11:580547. doi: 10.3389/fimmu.2020.580547. eCollection 2020. Front Immunol. 2020. PMID: 33363532 Free PMC article.
The impact of gastrointestinal dysmotility on the aerodigestive microbiome of pediatric lung transplant recipients.
Lötstedt B, Boyer D, Visner G, Freiberger D, Lurie M, Kane M, DiFilippo C, Lundeberg J, Narvaez-Rivas M, Setchell K, Alm E, Rosen R. Lötstedt B, et al. Among authors: lundeberg j. J Heart Lung Transplant. 2021 Mar;40(3):210-219. doi: 10.1016/j.healun.2020.11.013. Epub 2020 Dec 5. J Heart Lung Transplant. 2021. PMID: 33349521 Free PMC article.
Longitudinal Multi-omics Analyses Identify Responses of Megakaryocytes, Erythroid Cells, and Plasmablasts as Hallmarks of Severe COVID-19.
Bernardes JP, Mishra N, Tran F, Bahmer T, Best L, Blase JI, Bordoni D, Franzenburg J, Geisen U, Josephs-Spaulding J, Köhler P, Künstner A, Rosati E, Aschenbrenner AC, Bacher P, Baran N, Boysen T, Brandt B, Bruse N, Dörr J, Dräger A, Elke G, Ellinghaus D, Fischer J, Forster M, Franke A, Franzenburg S, Frey N, Friedrichs A, Fuß J, Glück A, Hamm J, Hinrichsen F, Hoeppner MP, Imm S, Junker R, Kaiser S, Kan YH, Knoll R, Lange C, Laue G, Lier C, Lindner M, Marinos G, Markewitz R, Nattermann J, Noth R, Pickkers P, Rabe KF, Renz A, Röcken C, Rupp J, Schaffarzyk A, Scheffold A, Schulte-Schrepping J, Schunk D, Skowasch D, Ulas T, Wandinger KP, Wittig M, Zimmermann J, Busch H, Hoyer BF, Kaleta C, Heyckendorf J, Kox M, Rybniker J, Schreiber S, Schultze JL, Rosenstiel P; HCA Lung Biological Network; Deutsche COVID-19 Omics Initiative (DeCOI). Bernardes JP, et al. Immunity. 2020 Dec 15;53(6):1296-1314.e9. doi: 10.1016/j.immuni.2020.11.017. Epub 2020 Nov 26. Immunity. 2020. PMID: 33296687 Free PMC article.
Chronic lung diseases are associated with gene expression programs favoring SARS-CoV-2 entry and severity.
Bui LT, Winters NI, Chung MI, Joseph C, Gutierrez AJ, Habermann AC, Adams TS, Schupp JC, Poli S, Peter LM, Taylor CJ, Blackburn JB, Richmond BW, Nicholson AG, Rassl D, Wallace WA, Rosas IO, Jenkins RG, Kaminski N, Kropski JA, Banovich NE; Human Cell Atlas Lung Biological Network. Bui LT, et al. bioRxiv [Preprint]. 2021 Jan 4:2020.10.20.347187. doi: 10.1101/2020.10.20.347187. bioRxiv. 2021. Update in: Nat Commun. 2021 Jul 14;12(1):4314. doi: 10.1038/s41467-021-24467-0. PMID: 33106805 Free PMC article. Updated. Preprint.
Deconstructing tumor heterogeneity: the stromal perspective.
Vickman RE, Faget DV, Beachy P, Beebe D, Bhowmick NA, Cukierman E, Deng WM, Granneman JG, Hildesheim J, Kalluri R, Lau KS, Lengyel E, Lundeberg J, Moscat J, Nelson PS, Pietras K, Politi K, Puré E, Scherz-Shouval R, Sherman MH, Tuveson D, Weeraratna AT, White RM, Wong MH, Woodhouse EC, Zheng Y, Hayward SW, Stewart SA. Vickman RE, et al. Among authors: lundeberg j. Oncotarget. 2020 Oct 6;11(40):3621-3632. doi: 10.18632/oncotarget.27736. eCollection 2020 Oct 6. Oncotarget. 2020. PMID: 33088423 Free PMC article.
Spatial Transcriptomics Reveals Genes Associated with Dysregulated Mitochondrial Functions and Stress Signaling in Alzheimer Disease.
Navarro JF, Croteau DL, Jurek A, Andrusivova Z, Yang B, Wang Y, Ogedegbe B, Riaz T, Støen M, Desler C, Rasmussen LJ, Tønjum T, Galas MC, Lundeberg J, Bohr VA. Navarro JF, et al. Among authors: lundeberg j. iScience. 2020 Sep 15;23(10):101556. doi: 10.1016/j.isci.2020.101556. eCollection 2020 Oct 23. iScience. 2020. PMID: 33083725 Free PMC article.
A latent lineage potential in resident neural stem cells enables spinal cord repair.
Llorens-Bobadilla E, Chell JM, Le Merre P, Wu Y, Zamboni M, Bergenstråhle J, Stenudd M, Sopova E, Lundeberg J, Shupliakov O, Carlén M, Frisén J. Llorens-Bobadilla E, et al. Among authors: lundeberg j. Science. 2020 Oct 2;370(6512):eabb8795. doi: 10.1126/science.abb8795. Science. 2020. PMID: 33004487
Multimodal Analysis of Composition and Spatial Architecture in Human Squamous Cell Carcinoma.
Ji AL, Rubin AJ, Thrane K, Jiang S, Reynolds DL, Meyers RM, Guo MG, George BM, Mollbrink A, Bergenstråhle J, Larsson L, Bai Y, Zhu B, Bhaduri A, Meyers JM, Rovira-Clavé X, Hollmig ST, Aasi SZ, Nolan GP, Lundeberg J, Khavari PA. Ji AL, et al. Among authors: lundeberg j. Cell. 2020 Sep 17;182(6):1661-1662. doi: 10.1016/j.cell.2020.08.043. Cell. 2020. PMID: 32946785 Free PMC article. No abstract available.
Whole-genome sequencing and gene network modules predict gemcitabine/carboplatin-induced myelosuppression in non-small cell lung cancer patients.
Björn N, Badam TVS, Spalinskas R, Brandén E, Koyi H, Lewensohn R, De Petris L, Lubovac-Pilav Z, Sahlén P, Lundeberg J, Gustafsson M, Gréen H. Björn N, et al. Among authors: lundeberg j. NPJ Syst Biol Appl. 2020 Aug 24;6(1):25. doi: 10.1038/s41540-020-00146-6. NPJ Syst Biol Appl. 2020. PMID: 32839457 Free PMC article.
Myocyte-Specific Upregulation of ACE2 in Cardiovascular Disease: Implications for SARS-CoV-2-Mediated Myocarditis.
Tucker NR, Chaffin M, Bedi KC Jr, Papangeli I, Akkad AD, Arduini A, Hayat S, Eraslan G, Muus C, Bhattacharyya RP, Stegmann CM; Human Cell Atlas Lung Biological Network; Margulies KB, Ellinor PT; Human Cell Atlas Lung Biological Network Consortium Members. Tucker NR, et al. Circulation. 2020 Aug 18;142(7):708-710. doi: 10.1161/CIRCULATIONAHA.120.047911. Epub 2020 Jun 22. Circulation. 2020. PMID: 32795091 Free PMC article.
Spatial Transcriptomics and In Situ Sequencing to Study Alzheimer's Disease.
Chen WT, Lu A, Craessaerts K, Pavie B, Sala Frigerio C, Corthout N, Qian X, Laláková J, Kühnemund M, Voytyuk I, Wolfs L, Mancuso R, Salta E, Balusu S, Snellinx A, Munck S, Jurek A, Fernandez Navarro J, Saido TC, Huitinga I, Lundeberg J, Fiers M, De Strooper B. Chen WT, et al. Among authors: lundeberg j. Cell. 2020 Aug 20;182(4):976-991.e19. doi: 10.1016/j.cell.2020.06.038. Epub 2020 Jul 22. Cell. 2020. PMID: 32702314 Free article.
Genetic association of gemcitabine/carboplatin-induced leukopenia and neutropenia in non-small cell lung cancer patients using whole-exome sequencing.
Svedberg A, Björn N, Sigurgeirsson B, Pradhananga S, Brandén E, Koyi H, Lewensohn R, De Petris L, Apellániz-Ruiz M, Rodríguez-Antona C, Lundeberg J, Gréen H. Svedberg A, et al. Among authors: lundeberg j. Lung Cancer. 2020 Sep;147:106-114. doi: 10.1016/j.lungcan.2020.07.005. Epub 2020 Jul 12. Lung Cancer. 2020. PMID: 32683206 Free article.
Molecular atlas of the adult mouse brain.
Ortiz C, Navarro JF, Jurek A, Märtin A, Lundeberg J, Meletis K. Ortiz C, et al. Among authors: lundeberg j. Sci Adv. 2020 Jun 26;6(26):eabb3446. doi: 10.1126/sciadv.abb3446. eCollection 2020 Jun. Sci Adv. 2020. PMID: 32637622 Free PMC article.
Multimodal Analysis of Composition and Spatial Architecture in Human Squamous Cell Carcinoma.
Ji AL, Rubin AJ, Thrane K, Jiang S, Reynolds DL, Meyers RM, Guo MG, George BM, Mollbrink A, Bergenstråhle J, Larsson L, Bai Y, Zhu B, Bhaduri A, Meyers JM, Rovira-Clavé X, Hollmig ST, Aasi SZ, Nolan GP, Lundeberg J, Khavari PA. Ji AL, et al. Among authors: lundeberg j. Cell. 2020 Jul 23;182(2):497-514.e22. doi: 10.1016/j.cell.2020.05.039. Epub 2020 Jun 23. Cell. 2020. PMID: 32579974 Free PMC article.
Transcriptional output, cell-type densities, and normalization in spatial transcriptomics.
Saiselet M, Rodrigues-Vitória J, Tourneur A, Craciun L, Spinette A, Larsimont D, Andry G, Lundeberg J, Maenhaut C, Detours V. Saiselet M, et al. Among authors: lundeberg j. J Mol Cell Biol. 2020 Jun 23;12(11):906-908. doi: 10.1093/jmcb/mjaa028. J Mol Cell Biol. 2020. PMID: 32573704 Free PMC article. No abstract available.
SARS-CoV-2 Receptor ACE2 Is an Interferon-Stimulated Gene in Human Airway Epithelial Cells and Is Detected in Specific Cell Subsets across Tissues.
Ziegler CGK, Allon SJ, Nyquist SK, Mbano IM, Miao VN, Tzouanas CN, Cao Y, Yousif AS, Bals J, Hauser BM, Feldman J, Muus C, Wadsworth MH 2nd, Kazer SW, Hughes TK, Doran B, Gatter GJ, Vukovic M, Taliaferro F, Mead BE, Guo Z, Wang JP, Gras D, Plaisant M, Ansari M, Angelidis I, Adler H, Sucre JMS, Taylor CJ, Lin B, Waghray A, Mitsialis V, Dwyer DF, Buchheit KM, Boyce JA, Barrett NA, Laidlaw TM, Carroll SL, Colonna L, Tkachev V, Peterson CW, Yu A, Zheng HB, Gideon HP, Winchell CG, Lin PL, Bingle CD, Snapper SB, Kropski JA, Theis FJ, Schiller HB, Zaragosi LE, Barbry P, Leslie A, Kiem HP, Flynn JL, Fortune SM, Berger B, Finberg RW, Kean LS, Garber M, Schmidt AG, Lingwood D, Shalek AK, Ordovas-Montanes J; HCA Lung Biological Network. Electronic address: lung-network@humancellatlas.org; HCA Lung Biological Network. Ziegler CGK, et al. Cell. 2020 May 28;181(5):1016-1035.e19. doi: 10.1016/j.cell.2020.04.035. Epub 2020 Apr 27. Cell. 2020. PMID: 32413319 Free PMC article.
A Spatiotemporal Organ-Wide Gene Expression and Cell Atlas of the Developing Human Heart.
Asp M, Giacomello S, Larsson L, Wu C, Fürth D, Qian X, Wärdell E, Custodio J, Reimegård J, Salmén F, Österholm C, Ståhl PL, Sundström E, Åkesson E, Bergmann O, Bienko M, Månsson-Broberg A, Nilsson M, Sylvén C, Lundeberg J. Asp M, et al. Among authors: lundeberg j. Cell. 2019 Dec 12;179(7):1647-1660.e19. doi: 10.1016/j.cell.2019.11.025. Cell. 2019. PMID: 31835037 Free article.
Genes and variants in hematopoiesis-related pathways are associated with gemcitabine/carboplatin-induced thrombocytopenia.
Björn N, Sigurgeirsson B, Svedberg A, Pradhananga S, Brandén E, Koyi H, Lewensohn R, de Petris L, Apellániz-Ruiz M, Rodríguez-Antona C, Lundeberg J, Gréen H. Björn N, et al. Among authors: lundeberg j. Pharmacogenomics J. 2020 Apr;20(2):179-191. doi: 10.1038/s41397-019-0099-8. Epub 2019 Oct 15. Pharmacogenomics J. 2020. PMID: 31616045
High-definition spatial transcriptomics for in situ tissue profiling.
Vickovic S, Eraslan G, Salmén F, Klughammer J, Stenbeck L, Schapiro D, Äijö T, Bonneau R, Bergenstråhle L, Navarro JF, Gould J, Griffin GK, Borg Å, Ronaghi M, Frisén J, Lundeberg J, Regev A, Ståhl PL. Vickovic S, et al. Among authors: lundeberg j. Nat Methods. 2019 Oct;16(10):987-990. doi: 10.1038/s41592-019-0548-y. Epub 2019 Sep 9. Nat Methods. 2019. PMID: 31501547 Free PMC article.
Spatiotemporal dynamics of molecular pathology in amyotrophic lateral sclerosis.
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. Maniatis S, et al. Among authors: lundeberg j. Science. 2019 Apr 5;364(6435):89-93. doi: 10.1126/science.aav9776. Science. 2019. PMID: 30948552
A radical switch in clonality reveals a stem cell niche in the epiphyseal growth plate.
Newton PT, Li L, Zhou B, Schweingruber C, Hovorakova M, Xie M, Sun X, Sandhow L, Artemov AV, Ivashkin E, Suter S, Dyachuk V, El Shahawy M, Gritli-Linde A, Bouderlique T, Petersen J, Mollbrink A, Lundeberg J, Enikolopov G, Qian H, Fried K, Kasper M, Hedlund E, Adameyko I, Sävendahl L, Chagin AS. Newton PT, et al. Among authors: lundeberg j. Nature. 2019 Mar;567(7747):234-238. doi: 10.1038/s41586-019-0989-6. Epub 2019 Feb 27. Nature. 2019. PMID: 30814736
Single-Stranded Nucleic Acids Regulate TLR3/4/7 Activation through Interference with Clathrin-Mediated Endocytosis.
Järver P, Dondalska A, Poux C, Sandberg A, Bergenstråhle J, Sköld AE, Dereuddre-Bosquet N, Martinon F, Pålsson S, Zaghloul E, Brodin D, Sander B, Lennox KA, Behlke MA, El-Andaloussi S, Lehtiö J, Lundeberg J, LeGrand R, Spetz AL. Järver P, et al. Among authors: lundeberg j. Sci Rep. 2018 Oct 26;8(1):15841. doi: 10.1038/s41598-018-33960-4. Sci Rep. 2018. PMID: 30367171 Free PMC article.
Spatial maps of prostate cancer transcriptomes reveal an unexplored landscape of heterogeneity.
Berglund E, Maaskola J, Schultz N, Friedrich S, Marklund M, Bergenstråhle J, Tarish F, Tanoglidi A, Vickovic S, Larsson L, Salmén F, Ogris C, Wallenborg K, Lagergren J, Ståhl P, Sonnhammer E, Helleday T, Lundeberg J. Berglund E, et al. Among authors: lundeberg j. Nat Commun. 2018 Jun 20;9(1):2419. doi: 10.1038/s41467-018-04724-5. Nat Commun. 2018. PMID: 29925878 Free PMC article.
The Human Cell Atlas.
Regev A, Teichmann SA, Lander ES, Amit I, Benoist C, Birney E, Bodenmiller B, Campbell P, Carninci P, Clatworthy M, Clevers H, Deplancke B, Dunham I, Eberwine J, Eils R, Enard W, Farmer A, Fugger L, Göttgens B, Hacohen N, Haniffa M, Hemberg M, Kim S, Klenerman P, Kriegstein A, Lein E, Linnarsson S, Lundberg E, Lundeberg J, Majumder P, Marioni JC, Merad M, Mhlanga M, Nawijn M, Netea M, Nolan G, Pe'er D, Phillipakis A, Ponting CP, Quake S, Reik W, Rozenblatt-Rosen O, Sanes J, Satija R, Schumacher TN, Shalek A, Shapiro E, Sharma P, Shin JW, Stegle O, Stratton M, Stubbington MJT, Theis FJ, Uhlen M, van Oudenaarden A, Wagner A, Watt F, Weissman J, Wold B, Xavier R, Yosef N; Human Cell Atlas Meeting Participants. Regev A, et al. Among authors: lundeberg j. Elife. 2017 Dec 5;6:e27041. doi: 10.7554/eLife.27041. Elife. 2017. PMID: 29206104 Free PMC article.
SweGen: a whole-genome data resource of genetic variability in a cross-section of the Swedish population.
Ameur A, Dahlberg J, Olason P, Vezzi F, Karlsson R, Martin M, Viklund J, Kähäri AK, Lundin P, Che H, Thutkawkorapin J, Eisfeldt J, Lampa S, Dahlberg M, Hagberg J, Jareborg N, Liljedahl U, Jonasson I, Johansson Å, Feuk L, Lundeberg J, Syvänen AC, Lundin S, Nilsson D, Nystedt B, Magnusson PK, Gyllensten U. Ameur A, et al. Among authors: lundeberg j. Eur J Hum Genet. 2017 Nov;25(11):1253-1260. doi: 10.1038/ejhg.2017.130. Epub 2017 Aug 23. Eur J Hum Genet. 2017. PMID: 28832569 Free PMC article.
Spatially resolved transcriptome profiling in model plant species.
Giacomello S, Salmén F, Terebieniec BK, Vickovic S, Navarro JF, Alexeyenko A, Reimegård J, McKee LS, Mannapperuma C, Bulone V, Ståhl PL, Sundström JF, Street NR, Lundeberg J. Giacomello S, et al. Among authors: lundeberg j. Nat Plants. 2017 May 8;3:17061. doi: 10.1038/nplants.2017.61. Nat Plants. 2017. PMID: 28481330
Electrochemical Genetic Profiling of Single Cancer Cells.
Acero Sánchez JL, Joda H, Henry OY, Solnestam BW, Kvastad L, Akan PS, Lundeberg J, Laddach N, Ramakrishnan D, Riley I, Schwind C, Latta D, O'Sullivan CK. Acero Sánchez JL, et al. Among authors: lundeberg j. Anal Chem. 2017 Mar 21;89(6):3378-3385. doi: 10.1021/acs.analchem.6b03973. Epub 2017 Feb 28. Anal Chem. 2017. PMID: 28211676
Proteogenomics produces comprehensive and highly accurate protein-coding gene annotation in a complete genome assembly of Malassezia sympodialis.
Zhu Y, Engström PG, Tellgren-Roth C, Baudo CD, Kennell JC, Sun S, Billmyre RB, Schröder MS, Andersson A, Holm T, Sigurgeirsson B, Wu G, Sankaranarayanan SR, Siddharthan R, Sanyal K, Lundeberg J, Nystedt B, Boekhout T, Dawson TL Jr, Heitman J, Scheynius A, Lehtiö J. Zhu Y, et al. Among authors: lundeberg j. Nucleic Acids Res. 2017 Mar 17;45(5):2629-2643. doi: 10.1093/nar/gkx006. Nucleic Acids Res. 2017. PMID: 28100699 Free PMC article.
Quality Matters: 2016 Annual Conference of the National Infrastructures for Biobanking.
Doucet M, Becker KF, Björkman J, Bonnet J, Clément B, Daidone MG, Duyckaerts C, Erb G, Haslacher H, Hofman P, Huppertz B, Junot C, Lundeberg J, Metspalu A, Lavitrano M, Litton JE, Moore HM, Morente M, Naimi BY, Oelmueller U, Ollier B, Parodi B, Ruan L, Stanta G, Turano P, Vaught J, Watson P, Wichmann HE, Yuille M, Zaomi M, Zatloukal K, Dagher G. Doucet M, et al. Among authors: lundeberg j. Biopreserv Biobank. 2017 Jun;15(3):270-276. doi: 10.1089/bio.2016.0053. Epub 2016 Dec 19. Biopreserv Biobank. 2017. PMID: 27992240 Free PMC article. No abstract available.
Massive and parallel expression profiling using microarrayed single-cell sequencing.
Vickovic S, Ståhl PL, Salmén F, Giatrellis S, Westholm JO, Mollbrink A, Navarro JF, Custodio J, Bienko M, Sutton LA, Rosenquist R, Frisén J, Lundeberg J. Vickovic S, et al. Among authors: lundeberg j. Nat Commun. 2016 Oct 14;7:13182. doi: 10.1038/ncomms13182. Nat Commun. 2016. PMID: 27739429 Free PMC article.
Rationale and design of the PREFERS (Preserved and Reduced Ejection Fraction Epidemiological Regional Study) Stockholm heart failure study: an epidemiological regional study in Stockholm county of 2.1 million inhabitants.
Linde C, Eriksson MJ, Hage C, Wallén H, Persson B, Corbascio M, Lundeberg J, Maret E, Ugander M, Persson H; Stockholm County/Karolinska Institutet 4D heart failure investigators. Linde C, et al. Among authors: lundeberg j. Eur J Heart Fail. 2016 Oct;18(10):1287-1297. doi: 10.1002/ejhf.599. Epub 2016 Jul 7. Eur J Heart Fail. 2016. PMID: 27384611 Free article.
Visualization and analysis of gene expression in tissue sections by spatial transcriptomics.
Ståhl PL, Salmén F, Vickovic S, Lundmark A, Navarro JF, Magnusson J, Giacomello S, Asp M, Westholm JO, Huss M, Mollbrink A, Linnarsson S, Codeluppi S, Borg Å, Pontén F, Costea PI, Sahlén P, Mulder J, Bergmann O, Lundeberg J, Frisén J. Ståhl PL, et al. Among authors: lundeberg j. Science. 2016 Jul 1;353(6294):78-82. doi: 10.1126/science.aaf2403. Science. 2016. PMID: 27365449
Genome-wide identification of Wig-1 mRNA targets by RIP-Seq analysis.
Bersani C, Huss M, Giacomello S, Xu LD, Bianchi J, Eriksson S, Jerhammar F, Alexeyenko A, Vilborg A, Lundeberg J, Lui WO, Wiman KG. Bersani C, et al. Among authors: lundeberg j. Oncotarget. 2016 Jan 12;7(2):1895-911. doi: 10.18632/oncotarget.6557. Oncotarget. 2016. PMID: 26672765 Free PMC article.
Serendipitous Meta-Transcriptomics: The Fungal Community of Norway Spruce (Picea abies).
Delhomme N, Sundström G, Zamani N, Lantz H, Lin YC, Hvidsten TR, Höppner MP, Jern P, Van de Peer Y, Lundeberg J, Grabherr MG, Street NR. Delhomme N, et al. Among authors: lundeberg j. PLoS One. 2015 Sep 28;10(9):e0139080. doi: 10.1371/journal.pone.0139080. eCollection 2015. PLoS One. 2015. PMID: 26413905 Free PMC article.
Mutations in SLC12A5 in epilepsy of infancy with migrating focal seizures.
Stödberg T, McTague A, Ruiz AJ, Hirata H, Zhen J, Long P, Farabella I, Meyer E, Kawahara A, Vassallo G, Stivaros SM, Bjursell MK, Stranneheim H, Tigerschiöld S, Persson B, Bangash I, Das K, Hughes D, Lesko N, Lundeberg J, Scott RC, Poduri A, Scheffer IE, Smith H, Gissen P, Schorge S, Reith ME, Topf M, Kullmann DM, Harvey RJ, Wedell A, Kurian MA. Stödberg T, et al. Among authors: lundeberg j. Nat Commun. 2015 Sep 3;6:8038. doi: 10.1038/ncomms9038. Nat Commun. 2015. PMID: 26333769 Free PMC article.
329 results