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@cancerbits

Developmental Cancer Genomics

Taking apart childhood cancer bit by bit
README.md

Developmental Cancer Genomics

@ St. Anna Children's Cancer Research Institute (CCRI)

We are a team of computational biologists at St. Anna Children's Cancer Research Institute (CCRI). It is our goal to understand developmental processes in cancer biology by employing an integrative approach that combines developmental biology with functional genomics. For more information visit our lab website or our institutional homepage.

Lab links:

The repositories below host computer code associated with our publications.

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  1. saldana_montano2024_ncnb saldana_montano2024_ncnb Public

    Code repository accompanying the paper by Saldana & Montano et al. (2024), Nat. Commun.

    R

  2. Kirchberger_Shoeb2024_neut Kirchberger_Shoeb2024_neut Public

    Code repository accompanying the paper by Kirchberger, Shoeb, et al. (2024), Nat. Commun.

    Dockerfile

  3. kostelbal2023_nfatc1 kostelbal2023_nfatc1 Public archive

    R code used for the analysis of single-cell RNA-seq data presented in Köstel Bal et al., Blood, 2023

    R

  4. shahin2021_ikzf2_het shahin2021_ikzf2_het Public archive

    Code repository accompanying the paper by Shahin et al. (2021), Blood Adv

    R

  5. santini2021_imprints santini2021_imprints Public archive

    Code repository accompanying the paper by Santini, Halbritter, et al. (2021), Nat. Commun.

    R 1

  6. lch_hierarchy lch_hierarchy Public archive

    Code for Epigenomics and Single-cell Sequencing Define a Developmental Hierarchy in Langerhans Cell Histiocytosis (Halbritter, Farlik, et al. 2019 Cancer Discov.)

    R 3

Repositories

Showing 10 of 23 repositories
  • cancerbits.github.io Public

    Lab website.

    cancerbits/cancerbits.github.io’s past year of commit activity
    HTML 0 0 0 0 Updated Apr 14, 2025
  • saldana_montano2024_ncnb Public

    Code repository accompanying the paper by Saldana & Montano et al. (2024), Nat. Commun.

    cancerbits/saldana_montano2024_ncnb’s past year of commit activity
    R 0 0 0 0 Updated Feb 21, 2025
  • ressler2024_neobcc Public

    Code repository for the analysis of single-cell RNA-seq, TCR- and BCR-Seq data presented in Ressler JM et al., Nature Cancer (2025)

    cancerbits/ressler2024_neobcc’s past year of commit activity
    HTML 1 0 0 0 Updated Feb 4, 2025
  • noorizadeh2025_ef_igf1_yap1 Public

    Code used for the analysis of RNA-seq and ATAC-seq data presented in Noorizadeh et al., 2025

    cancerbits/noorizadeh2025_ef_igf1_yap1’s past year of commit activity
    R 0 MIT 0 0 0 Updated Jan 31, 2025
  • ransmayr2024_ltbr Public

    Code used for the analysis of single-cell RNA-seq data presented in Ransmayr et al., 2024

    cancerbits/ransmayr2024_ltbr’s past year of commit activity
    R 0 0 0 0 Updated Nov 26, 2024
  • conveRtainer Public

    Docker containers + scripts for file conversions.

    cancerbits/conveRtainer’s past year of commit activity
    Shell 0 MIT 0 0 0 Updated Apr 24, 2024
  • scDE_benchmark Public

    Benchmark study for single-cell single-sample differential expression pipelines

    cancerbits/scDE_benchmark’s past year of commit activity
    R 2 0 0 0 Updated Mar 27, 2024
  • Kirchberger_Shoeb2024_neut Public

    Code repository accompanying the paper by Kirchberger, Shoeb, et al. (2024), Nat. Commun.

    cancerbits/Kirchberger_Shoeb2024_neut’s past year of commit activity
    Dockerfile 0 0 0 0 Updated Feb 28, 2024
  • cellxgene_data_examples Public Forked from esztersojtory/cellxgene
    cancerbits/cellxgene_data_examples’s past year of commit activity
    0 1 0 0 Updated Feb 23, 2024
  • vitessce_data_examples Public Forked from esztersojtory/vitessce_data

    Examples and instructions for configuring vitessce for Seurat objects.

    cancerbits/vitessce_data_examples’s past year of commit activity
    0 1 0 0 Updated Feb 23, 2024
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