Jan Schroeder

Reprogramming roadmap reveals route to human induced trophoblast stem cells

Xiaodong Liu, John F Ouyang, Fernando J Rossello, Jia Ping Tan, Kathryn C Davidson, Daniela S Valdes, Jan Schroeder, Yu BY Sun, Joseph Chen, Anja S Knaupp, Guizhi Sun, Hun S Chy, Ziyi Huang, Jahnvi Pflueger, Jaber Firas, Vincent Tano, Sam Buckberry, Jacob M Paynter, Michael R Larcombe, Daniel Poppe, et al.

Journal article  |  2020  |  Nature

The reprogramming of human somatic cells to primed or naive induced pluripotent stem cells recapitulates the stages of early embry..

A CX3CR1 Reporter hESC Line Facilitates Integrative Analysis of In-Vitro-Derived Microglia and Improved Microglia Identity upon Neuron-Glia Co-culture.

Alexandra Grubman, Teresa H Vandekolk, Jan Schröder, Guizhi Sun, Jessica Hatwell-Humble, Jonathan Chan, Minna Oksanen, Sarka Lehtonen, Cameron Hunt, Jari E Koistinaho, Susan K Nilsson, John M Haynes, Colin W Pouton, Jose M Polo

Journal article  |  2020  |  Stem Cell Reports

Multiple protocols have been published for generation of iMGLs from hESCs/iPSCs. To date, there are no guides to assist researcher..

Inferring structural variant cancer cell fraction

Marek Cmero, Ke Yuan, Cheng Soon Ong, Jan Schröder, undefined PCAWG Evolution and Heterogeneity Working Group, Niall M Corcoran, Tony Papenfuss, Christopher M Hovens, Florian Markowetz, Geoff Macintyre, undefined PCAWG Consortium

Journal article  |  2020  |  Nature Communications

We present SVclone, a computational method for inferring the cancer cell fraction of structural variant (SV) breakpoints from whol..

Overview of Fusion Detection Strategies Using Next-Generation Sequencing

Jan Schroeder, Amit Kumar, Stephen Q Wong

Book Chapter  |  2019  |  Methods in Molecular Biology

Structural gene fusion rearrangements leading to aberrant signaling are frequently detected in many cancer types. Gene fusions hav..

The Scalloped and Nerfin-1 Transcription Factors Cooperate to Maintain Neuronal Cell Fate

Joseph HA Vissers, Francesca Froldi, Jan Schroder, Anthony T Papenfuss, Louise Y Cheng, Kieran F Harvey

Journal article  |  2018  |  CELL REPORTS

The ability of cells to stably maintain their fate is governed by specific transcription regulators. Here, we show that the Scallo..

An orthotopic mouse model of gastric cancer invasion and metastasis

Rita A Busuttil, David S Liu, Natasha Di Costanzo, Jan Schroder, Catherine Mitchell, Alex Boussioutas

Journal article  |  2018  |  SCIENTIFIC REPORTS

Gastric cancer is a leading cause of cancer death worldwide, with advanced stage being correlated to the level of tumour invasion ..

GRIDSS: sensitive and specific genomic rearrangement detection using positional de Bruijn graph assembly

Daniel L Cameron, Jan Schroder, Jocelyn Sietsma Penington, Hongdo Do, Ramyar Molania, Alexander Dobrovic, Terence P Speed, Anthony T Papenfuss

Journal article  |  2017  |  GENOME RESEARCH

The identification of genomic rearrangements with high sensitivity and specificity using massively parallel sequencing remains a m..

SVclone: inferring structural variant cancer cell fraction

Marek Cmero, Cheng Soon Ong, Ke Yuan, Jan Schröder, Kangbo Mo, Niall Corcoran, Anthony Troy Papenfuss, Christopher Hovens, Florian Markowetz, Geoff Macintyre, undefined PCAWG Evolution and Heterogeneity Working Group

Journal article  |  2017

We present SVclone, a computational method for inferring the cancer cell fraction of structural variant breakpoints from whole-gen..

CLOVE: classification of genomic fusions into structural variation events

Jan Schroder, Adrianto Wirawan, Bertil Schmidt, Anthony T Papenfuss

Journal article  |  2017  |  BMC BIOINFORMATICS

BACKGROUND: A precise understanding of structural variants (SVs) in DNA is important in the study of cancer and population diversi..

A forward genetic screen identifies a negative regulator of rapid Ca2 -dependent cell egress (MS1) in the intracellular parasite Toxoplasma gondii

James M McCoy, Rebecca J Stewart, Alessandro D Uboldi, Dongdi Li, Jan Schroder, Nicollas E Scott, Anthony T Papenfuss, Adele M Lehane, Leonard J Foster, Christopher J Tonkin

Journal article  |  2017  |  JOURNAL OF BIOLOGICAL CHEMISTRY

Toxoplasma gondii, like all apicomplexan parasites, uses Ca2+ signaling pathways to activate gliding motility to power tissue diss..