Author

Kaiyang Zhang

University of HelsinkiORCID 0000-0002-4256-0079Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

Click to filter author papers

Signature Assays, Organisms & Methods

Click to filter · or open tag

Organism:human· 4 Approach:statistical model· 3 Research Focus:cell type annotation· 2 Research Focus:differential expression· 2 Assay:bulk RNA-seq· 1 Research Focus:cancer & tumor microenvironment· 1 Research Focus:cell signaling & trafficking· 1 Assay:DNA methylation· 1

Frequent Co-Authors

Sampsa HautaniemiiD· 4 shared Antti HäkkineniD· 3 shared Johanna HynnineniD· 3 shared Katja KaipioiD· 3 shared Olli CarpéniD· 3 shared Sakari HietaneniD· 3 shared Amjad AlkodsiiD· 2 shared Anna VähärautioiD· 2 shared

Activity by Year

2018-2020 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 45 mutual co-author links

Click any collaborator node to inspect or filter shared papers

Focal author (center)Selected co-authorORCID co-authorUnlinked name

Curved chords = mutual co-authorship

4 shared papersBioinformatics

Sampsa HautaniemiORCID

Mutual co-authors in cluster

Author profile →

4 papers

Recent·Most cited

Analysis of single-cell RNA-seq data from ovarian cancer samples before and after chemotherapy links stress-related transcriptional profile withchemotherapy resistance

Kaiyang Zhang, Erdoğan Pekcan Erkan, Jun Dai, Noora Andersson, Katja Kaipio, Tarja Lamminen, Naziha Mansuri, Kaisa Huhtinen, Olli Carpén, Johanna Hynninen, Sakari Hietanen, Jaana Oikkonen, Antti Häkkinen, Sampsa Hautaniemi, Anna Vähärautio

The paper identifies a stress-related transcriptional profile in ovarian cancer linked to chemotherapy resistance and poor survival, suggesting MEK1/2 inhibitors as a potential treatment.

bioRxiv · Jun 6, 2020 · PreprintBioinformatics

PRISM: Recovering cell type specific expression profilesfrom composite RNA-seq data

Antti Häkkinen, Kaiyang Zhang, Amjad Alkodsi, Noora Andersson, Erdoğan Pekcan Erkan, Jun Dai, Katja Kaipio, Tarja Lamminen, Naziha Mansuri, Kaisa Huhtinen, Anna Vähärautio, Olli Carpén, Johanna Hynninen, Sakari Hietanen, Rainer Lehtonen, Sampsa Hautaniemi

PRISM recovers cell type specific expression profiles from composite RNA-seq data, improving patient response prediction compared to raw bulk data.

bioRxiv · Nov 25, 2019 · PreprintBioinformatics

Cellular transformation by combined lineage conversion and oncogene expression

Biswajyoti Sahu, Päivi Pihlajamaa, Kaiyang Zhang, Kimmo Palin, Saija Ahonen, Alejandra Cervera, Ari P. Ristimaki, Lauri A. Aaltonen, Sampsa Hautaniemi, Jussi Taipale

This study shows that combining oncogenes with lineage reprogramming can transform human cells into tumorigenic liver-like cells.

bioRxiv · Jul 18, 2019 · PreprintCancer Biology

Identifying differentially methylated sites in samples with varying tumor purity

Antti Häkkinen, Amjad Alkodsi, Chiara Facciotto, Kaiyang Zhang, Katja Kaipio, Sirpa Leppä, Olli Carpén, Seija Grénman, Johanna Hynninen, Sakari Hietanen, Rainer Lehtonen, Sampsa Hautaniemi

The paper presents a computational method to identify differentially methylated sites in heterogeneous tumor samples with varying cancer cell fractions, without needing normal controls or prior purity estimates.

Bioinformatics · Apr 17, 2018Peer-reviewedBioinformatics