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The Capital Region of Denmark - a part of Copenhagen University Hospital
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BloodSpot: a database of healthy and malignant haematopoiesis updated with purified and single cell mRNA sequencing profiles

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  1. Peak-valley-peak pattern of histone modifications delineates active regulatory elements and their directionality

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  2. BloodSpot: a database of gene expression profiles and transcriptional programs for healthy and malignant haematopoiesis

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  3. DNA secondary structures are associated with recombination in major Plasmodium falciparum variable surface antigen gene families

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  4. Ensembl Genomes 2013: scaling up access to genome-wide data

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  1. ERG Controls B Cell Development by Promoting Igh V-to-DJ Recombination

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  2. Mutant CEBPA directly drives the expression of the targetable tumor-promoting factor CD73 in AML

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  3. The splicing factor RBM25 controls MYC activity in acute myeloid leukemia

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  4. Leukemogenic nucleophosmin mutation disrupts the transcription factor hub regulating granulo-monocytic fates

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  5. Circulating tumor DNA as a marker of treatment response in BRAF V600E mutated non-melanoma solid tumors

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BloodSpot is a gene-centric database of mRNA expression of haematopoietic cells. The web-based interface to the database includes three concomitant levels of visualization for a gene query; foremost is the expression across hematopoietic cell types, second is analysis of survival of Acute Myeloid Leukaemia patients based on gene expression, and lastly, the expression visualized in an interactive developmental tree. With the introduction of single cell data we have now also included an unbiased dimensionality reduction method to show gene expression over the continuum of haematopoiesis. The webserver includes a few select analysis functionalities, like Student's t-test, identification of correlating genes and lookup of whole genetic signatures, with the aim of making generation and testing of hypotheses quick and intuitive. The visualizations have been updated to accommodate new datatypes and the database has been largely expanded with RNA-sequencing datasets, both purified in bulk and at single cell resolution, increasing the number of single samples more than 10 fold, while keeping simplicity in presentation. The database should be of interest for any researcher within leukaemia, haematopoiesis, cellular development, or stem cells. The database is freely available at www.bloodspot.eu.

Original languageEnglish
JournalNucleic Acids Research
Volume47
Issue numberD1
Pages (from-to)D881-D885
ISSN0305-1048
DOIs
Publication statusPublished - 8 Jan 2019

ID: 56694065