Research graph
References from LBFextract: Unveiling transcription factor dynamics from liquid biopsy data. Local targets link to admitted publications; unresolved targets remain external evidence.
A clinician’s handbook for using ctDNA throughout the patient journey
10.1186/s12943-022-01551-7 · 2022 · External reference
10.1038/s41576-018-0071-5
10.1038/s41576-018-0071-5 · External reference
10.1016/j.medj.2021.11.001
10.1016/j.medj.2021.11.001 · External reference
10.1038/s41571-020-00457-x
10.1038/s41571-020-00457-x · External reference
Unresolved reference
External reference
Cancer statistics, 2023
2023 · External reference
10.1016/j.cell.2015.11.050
10.1016/j.cell.2015.11.050 · External reference
10.1038/ng.3648
10.1038/ng.3648 · External reference
Inference of transcription factor binding from cell-free DNA enables tumor subtype prediction and early detection
10.1038/s41467-019-12714-4 · 2019 · External reference
10.1101/gr.242719.118
10.1101/gr.242719.118 · External reference
Detection and characterization of lung cancer using cell-free DNA fragmentomes
10.1038/s41467-021-24994-w · 2021 · External reference
Fragment length of circulating tumor DNA
10.1371/journal.pgen.1006162 · 2016 · External reference
Enhanced detection of circulating tumor DNA by fragment size analysis
10.1126/scitranslmed.aat4921 · 2018 · External reference
Unresolved reference
External reference
Fragmentation patterns and personalized sequencing of cell‐free DNA in urine and plasma of glioma patients
10.15252/emmm.202012881 · 2021 · External reference
Unresolved reference
External reference
10.1158/2159-8290.cd-19-0622
10.1158/2159-8290.cd-19-0622 · External reference
10.1016/s0140-6736(18)31268-6
10.1016/s0140-6736(18)31268-6 · External reference
10.1016/j.tig.2021.06.007
10.1016/j.tig.2021.06.007 · External reference
10.1158/2159-8290.cd-22-0692
10.1158/2159-8290.cd-22-0692 · External reference
Unresolved reference
External reference
Multimodal analysis of cell-free DNA whole-genome sequencing for pediatric cancers with low mutational burden
10.1038/s41467-021-23445-w · 2021 · External reference
GCparagon: evaluating and correcting GC biases in cell-free DNA at the fragment level
2023 · External reference
Unresolved reference
External reference
10.1038/nature10002
10.1038/nature10002 · External reference
10.1038/s41416-021-01635-z
10.1038/s41416-021-01635-z · External reference
10.3390/diagnostics12040978
10.3390/diagnostics12040978 · External reference
10.1073/pnas.1406103111
10.1073/pnas.1406103111 · External reference
10.1038/s41587-022-01222-4
10.1038/s41587-022-01222-4 · External reference
10.1200/jco.2017.77.6880
10.1200/jco.2017.77.6880 · External reference
10.1101/cshperspect.a030593
10.1101/cshperspect.a030593 · External reference
Patient derived organoids to model rare prostate cancer phenotypes
10.1038/s41467-018-04495-z · 2018 · External reference
10.1038/nm.4045
10.1038/nm.4045 · External reference
10.25080/majora-92bf1922-011
10.25080/majora-92bf1922-011 · External reference
10.1038/onc.2017.50
10.1038/onc.2017.50 · External reference
Reprogramming of the FOXA1 cistrome in treatment-emergent neuroendocrine prostate cancer
10.1038/s41467-021-22139-7 · 2021 · External reference
10.1016/j.ccell.2017.10.008
10.1016/j.ccell.2017.10.008 · External reference
Role of specialized composition of SWI/SNF complexes in prostate cancer lineage plasticity
10.1038/s41467-020-19328-1 · 2020 · External reference
Dynamic plasticity of prostate cancer intermediate cells during androgen receptor-targeted therapy
10.1016/j.celrep.2022.111123 · 2022 · External reference
FOXA2 is a sensitive and specific marker for small cell neuroendocrine carcinoma of the prostate
10.1038/modpathol.2017.44 · 2017 · External reference
TLE3 loss confers AR inhibitor resistance by facilitating GR-mediated human prostate cancer cell growth
10.7554/elife.47430 · 2019 · External reference
Twelve years of SAMtools and BCFtools
10.1093/gigascience/giab008 · 2021 · External reference
Unresolved reference
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deepTools2: a next generation web server for deep-sequencing data analysis
10.1093/nar/gkw257 · 2016 · External reference
The sequence alignment/map format and SAMtools
10.1093/bioinformatics/btp352 · 2009 · External reference
HTSlib: C library for reading/writing high-throughput sequencing data
10.1093/gigascience/giab007 · 2021 · External reference
Mosdepth: quick coverage calculation for genomes and exomes
10.1093/bioinformatics/btx699 · 2018 · External reference
BEDTools: a flexible suite of utilities for comparing genomic features
10.1093/bioinformatics/btq033 · 2010 · External reference
Pybedtools: a flexible Python library for manipulating genomic datasets and annotations
10.1093/bioinformatics/btr539 · 2011 · External reference
Integration of regulatory networks by NKX3-1 promotes androgen-dependent prostate cancer survival
10.1128/mcb.05958-11 · 2012 · External reference
Neuroendocrine prostate cancer has distinctive, non-prostatic HOX code that is represented by the loss of HOXB13 expression
10.1038/s41598-021-82472-1 · 2021 · External reference
10.1158/1078-0432.ccr-18-4222
10.1158/1078-0432.ccr-18-4222 · External reference
Transcription factor-nucleosome dynamics from plasma cfDNA identifies ER-driven states in breast cancer
2022 · External reference
A framework for clinical cancer subtyping from nucleosome profiling of cell-free DNA
10.1038/s41467-022-35076-w · 2022 · External reference
Multi-modal cell-free DNA genomic and fragmentomic patterns enhance cancer survival and recurrence analysis
2024 · External reference
