Citing GeneCards in the Literature

In order to cite the GeneCards Suite databases and tools please note the relevant URL(s) and cite the relevant publication(s). Examples:
  1. GeneCards – the human gene database
    www.genecards.org
    Stelzer G, Rosen R, Plaschkes I, Zimmerman S, Twik M, Fishilevich S, Iny Stein T, Nudel R, Lieder I, Mazor Y, Kaplan S, Dahary D, Warshawsky D, Guan - Golan Y, Kohn A, Rappaport N, Safran M, and Lancet D. The GeneCards Suite: From Gene Data Mining to Disease Genome Sequence Analysis , Current Protocols in Bioinformatics(2016), 54:1.30.1 - 1.30.33.doi: 10.1002 / cpbi.5. [PDF]
  2. MalaCards – the human disease database
    www.malacards.org
    Rappaport N, Twik M, Plaschkes I, Nudel R, Iny Stein T, Levitt J, Gershoni M, Morrey CP, Safran M, and Lancet D. MalaCards: an amalgamated human disease compendium with diverse clinical and genetic annotation and structured search , Nucleic Acids Research(2016), doi: 10.1093 / nar / gkw1012. [PDF]
  3. GeneCaRNA – The Human ncRNA Database
    www.genecards.org/genecarna
    Barshir R, Fishilevich F, Iny-Stein T, Zelig O, Mazor Y, Guan-Golan Y, Safran M, Lancet D, GeneCaRNA: a comprehensive gene-centric database of human non-coding RNAs in the GeneCards Suite, Journal of Molecular Biology (2021) 166913. doi: 10.1016 in press
  4. GeneHancer – the human database of regulatory elements and their target genes
    www.genecards.org
    Fishilevich S, Nudel R, Rappaport N, Hadar R, Plaschkes I, Iny Stein T, Rosen N, Kohn A, Twik M, Safran M, Lancet D, and Cohen D. GeneHancer: genome - wide integration of enhancers and target genes in GeneCards , Database(Oxford)(2017), doi: 10.1093 / database / bax028. [PDF]
  5. VarElect – the NGS phenotyper
    ve.genecards.org
    Stelzer G, Plaschkes I, Oz - Levi D, Alkelai A, Olender T, Zimmerman S, Twik M., Belinky F, Fishilevich S, Nudel R, Guan - Golan Y, Warshawsky D, Dahary D, Kohn A, Mazor Y, Kaplan S, Iny Stein T, Baris H, Rappaport N, Safran M, and Lancet D. VarElect: the phenotype - based variation prioritizer of the GeneCards suite , BMC Genomics(2016), 17(Suppl 2):444; DOI: 10.1186 / s12864 - 016 - 2722 - 2. [PDF]
  6. TGex – the NGS analysis platform
    tgex.genecards.org
    Dahary D, Golan Y, Mazor Y, Zelig O, Barshir R, Twik M, Iny Stein T, Rosner G, Kariv R, Chen F, Zhang Q, Shen Y, Safran M, Lancet D and Fishilevich S. Genome analysis and knowledge-driven variant interpretation with TGex , BMC Med Genomics 12, 200 (2019) doi:10.1186/s12920-019-0647-8 [PDF]
  7. GeneAnalytics – the gene set analysis tool
    ga.genecards.org
    Ben-Ari Fuchs S, Lieder I, Stelzer G, Mazor Y, Buzhor E, Kaplan S, Bogoch Y, Plaschkes I, Shitrit A, Rappaport N, Kohn A, Edgar R, Shenhav L, Safran M, Lancet D, Guan-Golan Y, Warshawsky D, and Strichman R. GeneAnalytics:An Integrative Gene Set Analysis Tool for Next Generation Sequencing, RNAseq and Microarray Data, OMICS(2016) Volume 20, Number 3; DOI: 10.1089/omi.2015.0168. [PDF]
  8. PathCards – the pathway unification database
    pathcards.genecards.org
    Belinky F, Nativ N, Stelzer G, Zimmerman S, Iny Stein T, Safran M, and Lancet, D. PathCards: multi-source consolidation of human biological pathways, Database (2015) Vol. 2015: article ID bav006; doi:10.1093/database/bav006. [PDF]
  9. HIPED – the database of protein abundance in human tissues
    www.genecards.org
    Fishilevich S, Zimmerman S, Kohn A, Iny Stein T, Safran M, and Lancet D. Genic Insights From Integrated Human Proteomics in GeneCards, Database (2016); doi: 10.1093/database/baw030. [PDF]
  10. GeneLoc – the genome locator
    genecards.weizmann.ac.il/geneloc
    Rosen, N., Chalifa-Caspi, V., Shmueli, O., Adato, A., Lapidot, M., Stampnitzky, J., Safran, M., and Lancet, D. GeneLoc: Exon-based integration of human genome maps. Bioinformatics: 19,S1: 222-224 (2003) . [PDF]
  11. GeneALaCart – the GeneCards batch-query processor
    genealacart.genecards.org
    Stelzer G, Rosen R, Plaschkes I, Zimmerman S, Twik M, Fishilevich S, Iny Stein T, Nudel R, Lieder I, Mazor Y, Kaplan S, Dahary D, Warshawsky D, Guan - Golan Y, Kohn A, Rappaport N, Safran M, and Lancet D. The GeneCards Suite: From Gene Data Mining to Disease Genome Sequence Analysis , Current Protocols in Bioinformatics(2016), 54:1.30.1 - 1.30.33.doi: 10.1002 / cpbi.5. [PDF]
  12. GenesLikeMe – the partner hunter
    glm.genecards.org
    Stelzer G, Inger A, Olender T, Iny Stein T, Dalah I, Harel A, Safran M and Lancet D. GeneDecks: paralog hunting and gene-set distillation with GeneCards annotation OMICS, 2009, 13(6): 477-487 [PDF]

Complete list of our publications and presentations

  1. Barshir R, Fishilevich F, Iny-Stein T, Zelig O, Mazor Y, Guan-Golan Y, Safran M, Lancet D, GeneCaRNA: a comprehensive gene-centric database of human non-coding RNAs in the GeneCards Suite, Journal of Molecular Biology (2021) 166913. doi: 10.1016 in press
  2. RNAcentral Consortium. RNAcentral 2021: secondary structure integration, improved sequence search and new member databases, Nucleic Acids Res. 2021. doi: 10.1093/nar/gkaa921 [PDF]
  3. Cooper-Knock J, Zhang S, Kenna KP, Moll T, Franklin JP, Allen S, Nezhad HG, Iacoangeli A, Yacovzada NY, Eitan C, Hornstein E, Ehilak E, Celadova P, Bose D, Farhan S, Fishilevich S, Lancet D, Morrison KE, Shaw CE, Al-Chalabi A; Project MinE ALS Sequencing Consortium, Veldink JH, Kirby J, Snyder MP, Shaw PJ. Rare Variant Burden Analysis within Enhancers Identifies CAV1 as an ALS Risk Gene, Cell Rep. 2020 Dec 1;33(9):108456. doi: 10.1016/j.celrep.2020.108456 [PDF]
  4. Wang Y, Nudel R, Benros ME, Skogstrand K, Fishilevich S, iPSYCH-BROAD, Lancet D, Sun J, Hougaard DM, Andreassen OA, Mortensen PB, Buil A, Hansen TF, Thompson WK and Werge T. Genome-wide association study identifies 16 genomic regions associated with circulating cytokines at birth, PLoS Genet 16(11): e1009163. doi: 10.1371/journal.pgen.1009163 [PDF]
  5. Dahary D, Golan Y, Mazor Y, Zelig O, Barshir R, Twik M, Iny Stein T, Rosner G, Kariv R, Chen F, Zhang Q, Shen Y, Safran M, Lancet D and Fishilevich S. Genome analysis and knowledge-driven variant interpretation with TGex, BMC Med Genomics 12, 200 (2019) doi:10.1186/s12920-019-0647-8 [PDF]
  6. Safran M, Rosen N, Twik M, BarShir R, Iny Stein T, Dahary D, Fishilevich S, and Lancet D. The GeneCards Suite Chapter, Practical Guide to Life Science Databases, Spring Nature Reference MRW, in press
  7. Rappaport S, Fishilevich S, Nudel R, Twik M, Belinky F, Plaschkes I, Iny Stein T, Cohen D, Oz-Levi D, Safran M, and Lancet D. Rational confederation of genes and diseases: NGS interpretation via GeneCards, MalaCards and VarElect, BioMed Eng OnLine 2017, 16(Suppl 1):72, DOI: 10.1186/s12938-017-0359-2 [PDF]
  8. Fishilevich S, Nudel R, Rappaport N, Hadar R, Plaschkes I, Iny Stein T, Rosen N, Kohn A, Twik M, Safran M, Lancet D, and Cohen D. GeneHancer: genome - wide integration of enhancers and target genes in GeneCards , Database(Oxford)(2017), doi: 10.1093 / database / bax028. [PDF]
  9. Rappaport N, Twik M, Plaschkes I, Nudel R, Iny Stein T, Levitt J, Gershoni M, Morrey CP, Safran M, and Lancet D. MalaCards: an amalgamated human disease compendium with diverse clinical and genetic annotation and structured search , Nucleic Acids Research(2016), doi: 10.1093 / nar / gkw1012. [PDF]
  10. Stelzer G, Plaschkes I, Oz - Levi D, Alkelai A, Olender T, Zimmerman S, Twik M., Belinky F, Fishilevich S, Nudel R, Guan - Golan Y, Warshawsky D, Dahary D, Kohn A, Mazor Y, Kaplan S, Iny Stein T, Baris H, Rappaport N, Safran M, and Lancet D. VarElect: the phenotype - based variation prioritizer of the GeneCards suite , BMC Genomics(2016), 17(Suppl 2):444; DOI: 10.1186 / s12864 - 016 - 2722 - 2. [PDF]
  11. Stelzer G, Rosen R, Plaschkes I, Zimmerman S, Twik M, Fishilevich S, Iny Stein T, Nudel R, Lieder I, Mazor Y, Kaplan S, Dahary, D, Warshawsky D, Guan - Golan Y, Kohn A, Rappaport N, Safran M, and Lancet D. The GeneCards Suite: From Gene Data Mining to Disease Genome Sequence Analysis , Current Protocols in Bioinformatics(2016), 54:1.30.1 - 1.30.33.doi: 10.1002 / cpbi.5. [PDF]
  12. Fishilevich S, Zimmerman S, Kohn A, Iny Stein T, Safran M, and Lancet D. Genic Insights From Integrated Human Proteomics in GeneCards, Database (2016); doi: 10.1093/database/baw030. [PDF]
  13. Ben-Ari Fuchs S, Lieder I, Stelzer G, Mazor Y, Buzhor E, Kaplan S, Bogoch Y, Plaschkes I, Shitrit A, Rappaport N, Kohn A, Edgar R, Shenhav L, Safran M, Lancet D, Guan-Golan Y, Warshawsky D, and Strichman R. GeneAnalytics:An Integrative Gene Set Analysis Tool for Next Generation Sequencing, RNAseq and Microarray Data, OMICS(2016) Volume 20, Number 3; DOI: 10.1089/omi.2015.0168. [PDF]
  14. Belinky F, Nativ N, Stelzer G, Zimmerman S, Iny Stein T, Safran M, and Lancet, D. PathCards: multi-source consolidation of human biological pathways, Database (2015) Vol. 2015: article ID bav006; doi:10.1093/database/bav006. [PDF]
  15. Rappaport N, Twik M, Nativ N, Stelzer G, Bahir I, Iny Stein T, Safran M and Lancet D. MalaCards: A Comprehensive Automatically-Mined Database of Human Diseases, Curr. Protoc. Bioinform. 47:1.24:1.24.11.24.19. (Sept 2014) [PDF]
  16. Lancet D, Stelzer G, Golan Y, and Rinon A. Gene Trends: On Muscle, Fat, and Brain Genetic Engineering & Biotechnology News, Dec 16, 2013.
  17. Lancet D, Golan Y, Leshansky L, and Stelzer G. Gene Trends: Eye-Openers for Unusual Gene Variations Genetic Engineering & Biotechnology News, Oct 24, 2013.
  18. Lancet D, Golan Y, and Stelzer G. Gene Trends: Which Ones Should You Be Studying Now? Genetic Engineering & Biotechnology News, Oct 3, 2013.
  19. Olender T, Safran M, Edgar R, Stelzer G, Nativ N, Rosen N, Shtrichman R, Mazor Y, West M D, Keydar I, Rappaport N, Belinky F, Warshawsky D, and Lancet D. An Overview of Synergistic Data Tools for Biological Scrutiny Israel Journal of Chemistry, Volume 53, Issue 3-4, pages 185–198, April 2013. [PDF]
  20. Rappaport N, Nativ N, Stelzer G, Twik M, Guan-Golan Y, Iny Stein T, Bahir I, Belinky F, Morrey CP, Safran M and Lancet D. MalaCards: an integrated compendium for diseases and their annotation, Database 2013; doi: 10.1093/database/bat018. [PDF]
  21. Belinky F, Bahir I, Stelzer G, Zimmerman S, Rosen N, Nativ N, Dalah I, Iny Stein T, Rappaport N, Mituyama M, Safran M and Lancet D. Non-redundant compendium of human ncRNA genes in GeneCards, Bioinformatics 29, 2: 255-61 (2013). [PDF]
  22. Safran M, Nativ N, Golan Y, Dalah I, Iny Stein T, Stelzer G, and Lancet D. MalaCards – the integrated Human Malady Compendium, ISMB 2012. [PDF]
  23. Stelzer G, Dalah I, Iny Stein T, Satanower Y, Rosen N, Nativ N, Oz-Levi D, Olender T, Belinky F, Bahir I, Krug H, Perco P, Mayer B, Kolker E, Safran M and Lancet, D. In-silico Human Genomics with GeneCards, Human Genomics, 2011 Oct;5(6):709-17. [PDF]
  24. Harel A, Dalah I, Pietrokovski M, Safran M and Lancet D. Omics Data Management and Annotation, Chapter 3 Bioinformatics for Omics Data: Methods and Protocols Series: Methods in Molecular Biology, Vol. 719, ISBN: 978-1-61779-026-3, Mayer, Bernd (Ed.), Humana Press, March, 2011
  25. Safran M, Dalah I, Alexander J, Rosen N, Iny Stein T, Shmoish M, Nativ N, Bahir I, Doniger T, Krug H, Sirota-Madi A, Olender T, Golan Y, Stelzer G, Harel A and Lancet D. GeneCards Version 3: the human gene integrator Database 2010; doi: 10.1093/database/baq020 [PDF]
  26. Stelzer G, Inger A, Olender T, Iny Stein T, Dalah I, Harel A, Safran M and Lancet D. GeneDecks: paralog hunting and gene-set distillation with GeneCards annotation OMICS, 2009, 13(6): 477-487 [PDF]
  27. Harel A, Inger A, Stelzer G, Strichman-Almashanu L, Dalah I, Safran M and Lancet D. GIFtS: annotation landscape analysis with GeneCards BMC Bioinformatics 2009, 10:348 [PDF]
  28. Stelzer G, Harel A, Inger A, Olender T, Dalah I, Shmoish M, Ron S, Safran M and Lancet D. GeneDecks: GeneCards-based paralog hunting and gene set distillation. CSB2008 Aug, 2008
  29. Lancet D, Safran M, Olender T, Dalah I, Iny-Stein T, Inger A, Harel A and Stelzer G. GeneCards tools for combinatorial annotation and dissemination of human genome information GIACS Conference on Data in Complex Systems April, 2008
  30. Stelzer G, Harel A, Dalah A, Rosen N, Shmoish M, Iny Stein T, Sirota A, Madi A, Safran M and Lancet D. GeneCards: One stop site for human gene research FISEB (ILANIT) , Jan, 2008
  31. Ferrari F, Bortoluzzi S, Coppe A, Sirota A, Safran M, Shmoish M, Ferrari S, Lancet D, Danieli G A, and Bicciato S. Novel definition files for human GeneChips based on GeneAnnot. BMC Bioinformatics 2007, 8:446 (15 NOV 2007). [PDF]
  32. Safran M, Dalah I, Ron S, Shmoish M, Iny-Stein T, Rosen N, Madi A, Sirota A, Stelzer G and Lancet D. GeneDecks annotation combinatorics and unification for human genes. ISMB ECCB 2007
  33. Ron S, Strichman-Almashanu L, Shmoish M, Greenshpan O, Sirota A, Madi A, Iny-Stein T, Rosen N, Dalah I, Shmueli O, Safran M, Aumann Y, and Lancet D. GeneDecks: Gene-Set Analyses of GeneCards Annotations. ECCB 2006 .
  34. Lancet D, Ron S, Shmoish M, Madi A, Sirota A, Noy K, Rosen N, Greenshpan O, Shmueli O, Safran M, Aumann Y, and Strichman-Almashanu L. GeneDecks: A Systems Biology Facilitator with Combinatorial GeneCards Display. Transcriptome 2005. [PDF]
  35. Ron S, Strichman-Almashanu L, Shmoish M, Madi A, Sirota A, Noy K, Rosen N, Shmueli O, Safran M, and Lancet D. GeneDecks: A Systems Biology Facilitator With Combinatorial GeneCards Outlook. Poster and abstract at ISMB 2005. [PDF]
  36. Shklar M, Strichman-Almashanu L, Shmueli O, Shmoish M, Safran M, and Lancet D. GeneTide--Terra Incognita Discovery Endeavor: a new transcriptome focused member of the GeneCards/GeneNote suite of databases. Nucleic Acids Res. 33: D556 - D561 (2005) . [PDF]
  37. Yanai I, Benjamin H, Shmoish M, Chalifa-Caspi V, Shklar M, Ophir R, Bar-Even A, Horn-Saban S, Safran M, Domany E, Lancet D, Shmueli O. Genome-wide midrange transcription profiles reveal expression level relationships in human tissue specification. Bioinformatics 21, 5: 650-659 (2005). [PDF]
  38. Shklar, M., Shmueli, O., Strichman-Almashanu, L., Shmoish, M., Iny-Stein, T., Safran, M. and Lancet, D. TIDE--Terra Incognita Discovery Endeavor: Comprehensive EST assignment to GeneCards genes. Short paper and talk at ISMB/ECCB 2004. [PDF]
  39. Chalifa-Caspi, V., Yanai, I., Ophir, R., Rosen, N., Shmoish, M., Benjamin-Rodrig, H., Iny Stein, T., Shmueli, O., Safran, M. and Lancet, D. GeneAnnot: comprehensive two-way linking between oligonucleotide array probesets and GeneCards genes. Bioinformatics 20, 9: 1457-1458 (2004). [PDF]
  40. Chalifa-Caspi, V., Shmueli, O., Benjamin-Rodrig, H., Rosen, N., Shmoish, M., Yanai, I., Ophir, R., Kats, P., Safran, M. and Lancet, D. GeneAnnot: Interfacing GeneCards with high throughput gene expression compendia. Briefings in Bioinformatics 4, 4: 349-360 (2003) . [PDF]
  41. Safran, M., Chalifa-Caspi, V., Shmueli, O., Rosen, N., Benjamin-Rodrig, H., Ophir, R., Yanai, I., Shmoish, M., and Lancet, D. The GeneCards Family of Databases: GeneCards, GeneLoc, GeneNote and GeneAnnot. Proceedings of the IEEE Computer Science Bioinformatics Conference CSB2003,(2003) (Poster Abstract at CSB2003).
  42. Shmueli, O., Horn-Saban, S., Chalifa-Caspi, V., Shmoish, M., Ophir, R., Benjamin-Rodrig, H., Safran, M., Domany, E., and Lancet, D. GeneNote: whole genome expression profiles in normal human tissues. Comptes Rendus Biologies: 326, 10-11:1067-1072 (2003) . [PDF]
  43. Chalifa-Caspi, V., Yanai, I., Ophir, R., Shmoish,M., Benjamin-Rodrig, H., Rosen, N., Kats, P., Safran, M., Shmueli, O., and Lancet, D. GeneAnnot: Annotation of high-density oligunocleotide arrays and their linking with GeneCards. Poster Abstract at ISMB 2003
  44. Rosen, N., Chalifa-Caspi, V., Shmueli, O., Adato, A., Lapidot, M., Stampnitzky, J., Safran, M., and Lancet, D. GeneLoc: Exon-based integration of human genome maps. Bioinformatics: 19,S1: 222-224 (2003) . [PDF]
  45. Safran, M., Chalifa-Caspi, V., Shmueli, O., Olender, T., Lapidot, M., Rosen, N., Shmoish, M., Peter, Y., Glusman, G., Feldmesser, E., Adato, A., Peter, I., Khen, M., Atarot, T., Groner, Y., and Lancet, D. Human Gene-Centric Databases at the Weizmann Institute of Science: GeneCards, UDB, CroW 21 and HORDE . Nucleic Acids Research 31,1:142-146 (2003). [PDF]
  46. Safran, M., Solomon, I., Shmueli, O., Lapidot, M., Shen-Orr, S., Adato, A., Ben-Dor, U., Esterman, N., Rosen, N., Peter, I., Olender, T., Chalifa-Caspi, V., and Lancet, D. GeneCards 2002: towards a complete, object-oriented, human gene compendium . Bioinformatics: 18,11: 1542-1543 (2002). [PDF]
  47. Safran, M., Solomon, I., Shmueli, O., Lapidot, M., Shen-Orr, S., Adato, A., Ben-Dor, U., Esterman, N., Rosen, N., Peter, I., Olender, T., Chalifa-Caspi, V., and Lancet, D. GeneCards 2002: An Evolving Human Gene Compendium. Proceedings of the IEEE Computer Science Bioinformatics Conference CSB2002, p. 339 (2002) .
  48. Rebhan, M., Chalifa-Caspi, V., Prilusky, J., and Lancet, D. GeneCards: A novel functional genomics compendium with automated data mining and query reformulation support. Bioinformatics: 14: 656-664 (1998) . [PDF]
  49. Rebhan, M., Prilusky, J. Rapid access to biomedical knowledge with GeneCards and HotMolecBase: Implications for the electrophoretic analysis of large sets of gene products. Electrophoresis, special issue on 'Biomedicine and Biocomputing' , vol. 18: 2774-80 (1997) .
  50. Rebhan, M., Chalifa-Caspi, V., Prilusky, J., Lancet, D. GeneCards: integrating information about genes, proteins and diseases. Trends in Genetics 13: 163 (1997) . [PDF]