Evan Biederstedt

Evan Biederstedt, MSc

Associate in Biomedical Informatics
Gehlenborg Lab

Evan Biederstedt is a computational biologist with a background in cancer genomics. He is now spearheading the development of the Cell Annotation Platform (CAP) infrastructure, designed to improve our ability to interpret cellular state by facilitating the accumulation, sharing and analysis of relevant metadata and molecular signatures. His GitHub profile can be found here: https://github.com/evanbiederstedt.

scTab: Scaling cross-tissue single-cell annotation models.
Authors: Fischer F, Fischer DS, Mukhin R, Isaev A, Biederstedt E, Villani AC, Theis FJ.
Nat Commun
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Gene panel selection for targeted spatial transcriptomics.
Authors: Zhang Y, Petukhov V, Biederstedt E, Que R, Zhang K, Kharchenko PV.
Genome Biol
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Scaling cross-tissue single-cell annotation models.
Authors: Fischer F, Fischer DS, Biederstedt E, Villani AC, Theis FJ.
bioRxiv
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Gene panel selection for targeted spatial transcriptomics.
Authors: Zhang Y, Petukhov V, Biederstedt E, Que R, Zhang K, Kharchenko PV.
bioRxiv
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Haplotype-aware analysis of somatic copy number variations from single-cell transcriptomes.
Authors: Gao T, Soldatov R, Sarkar H, Kurkiewicz A, Biederstedt E, Loh PR, Kharchenko PV.
Nat Biotechnol
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An international virtual hackathon to build tools for the analysis of structural variants within species ranging from coronaviruses to vertebrates.
Authors: Mc Cartney AM, Mahmoud M, Jochum M, Agustinho DP, Zorman B, Al Khleifat A, Dabbaghie F, K Kesharwani R, Smolka M, Dawood M, Albin D, Aliyev E, Almabrazi H, Arslan A, Balaji A, Behera S, Billingsley K, L Cameron D, Daw J, T Dawson E, De Coster W, Du H, Dunn C, Esteban R, Jolly A, Kalra D, Liao C, Liu Y, Lu TY, M Havrilla J, M Khayat M, Marin M, Monlong J, Price S, Rafael Gener A, Ren J, Sagayaradj S, Sapoval N, Sinner C, C Soto D, Soylev A, Subramaniyan A, Syed N, Tadimeti N, Tater P, Vats P, Vaughn J, Walker K, Wang G, Zeng Q, Zhang S, Zhao T, Kille B, Biederstedt E, Chaisson M, English A, Kronenberg Z, J Treangen T, Hefferon T, Chin CS, Busby B, J Sedlazeck F.
F1000Res
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NCBI's Virus Discovery Codeathon: Building "FIVE" -The Federated Index of Viral Experiments API Index.
Authors: Martí-Carreras J, Gener AR, Miller SD, Brito AF, Camacho CE, Connor R, Deboutte W, Glickman C, Kristensen DM, Meyer WK, Modha S, Norris AL, Saha S, Belford AK, Biederstedt E, Brister JR, Buchmann JP, Cooley NP, Edwards RA, Javkar K, Muchow M, Muralidharan HS, Pepe-Ranney C, Shah N, Shakya M, Tisza MJ, Tully BJ, Vanmechelen B, Virta VC, Weissman JL, Zalunin V, Efremov A, Busby B.
Viruses
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Phase and context shape the function of composite oncogenic mutations.
Authors: Gorelick AN, Sánchez-Rivera FJ, Cai Y, Bielski CM, Biederstedt E, Jonsson P, Richards AL, Vasan N, Penson AV, Friedman ND, Ho YJ, Baslan T, Bandlamudi C, Scaltriti M, Schultz N, Lowe SW, Reznik E, Taylor BS.
Nature
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Epigenetic evolution and lineage histories of chronic lymphocytic leukaemia.
Authors: Gaiti F, Chaligne R, Gu H, Brand RM, Kothen-Hill S, Schulman RC, Grigorev K, Risso D, Kim KT, Pastore A, Huang KY, Alonso A, Sheridan C, Omans ND, Biederstedt E, Clement K, Wang L, Felsenfeld JA, Bhavsar EB, Aryee MJ, Allan JN, Furman R, Gnirke A, Wu CJ, Meissner A, Landau DA.
Nature
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A strategy for building and using a human reference pangenome.
Authors: Llamas B, Narzisi G, Schneider V, Audano PA, Biederstedt E, Blauvelt L, Bradbury P, Chang X, Chin CS, Fungtammasan A, Clarke WE, Cleary A, Ebler J, Eizenga J, Sibbesen JA, Markello CJ, Garrison E, Garg S, Hickey G, Lazo GR, Lin MF, Mahmoud M, Marschall T, Minkin I, Monlong J, Musunuri RL, Sagayaradj S, Novak AM, Rautiainen M, Regier A, Sedlazeck FJ, Siren J, Souilmi Y, Wagner J, Wrightsman T, Yokoyama TT, Zeng Q, Zook JM, Paten B, Busby B.
F1000Res
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