95 Works

Text-mined disease–lifestyle associations

Lars Juhl Jensen
Diseases–lifestyle associations text mined from PubMed abstracts. The associations were filtered to include only those with a z-score greater than 3 and related to ICD-10 level 3.

Text-mined disease–lifestyle associations

Lars Juhl Jensen
Diseases–lifestyle associations text mined from PubMed abstracts. The associations were filtered to include only those with a z-score greater than 3 and related to ICD-10 level 3.

Lifestyle dictionary

Lars Juhl Jensen
Lifestyle dictionary used for named entity recognition of lifestyle factors associated with diseases.

Lifestyle dictionary

Lars Juhl Jensen
Lifestyle dictionary used for named entity recognition of lifestyle factors associated with diseases.

The STRING and DISEASES databases: Network comparison of neurological and psychiatric disorders

Lars Juhl Jensen
We constructed a combined network of Alzheimer’s Disease, Parkinson’s Disease, and Major Depressive Disorder. We selected the top-100 proteins for each disorder in DISEASES, retrieved a network for them from the STRING database, and clustered it to visualize how the disorders relate at the molecular level. Finally we overlaid it with data on druggable protein families and FDA-approved drugs.

The STRING and DISEASES databases: Network comparison of neurological and psychiatric disorders

Lars Juhl Jensen
We constructed a combined network of Alzheimer’s Disease, Parkinson’s Disease, and Major Depressive Disorder. We selected the top-100 proteins for each disorder in DISEASES, retrieved a network for them from the STRING database, and clustered it to visualize how the disorders relate at the molecular level. Finally we overlaid it with data on druggable protein families and FDA-approved drugs.

BioCreative V.5 TIPS small dictionary

Lars Juhl Jensen
Reduced dictionary used by PiTagger for participation in the BioCreative V.5 BeCalm TIPS task.

BioCreative V.5 TIPS small dictionary

Lars Juhl Jensen
Reduced dictionary used by PiTagger for participation in the BioCreative V.5 BeCalm TIPS task.

BioCreative V.5 TIPS dictionary

Lars Juhl Jensen
Complete dictionary used by http://tagger.jensenlab.org for participation in the BioCreative V.5 BeCalm TIPS task.

BioCreative V.5 TIPS dictionary

Lars Juhl Jensen
Complete dictionary used by http://tagger.jensenlab.org for participation in the BioCreative V.5 BeCalm TIPS task.

Tip: Getting data into Impactstory but not your ORCID profile

Lars Juhl Jensen
The following is a guest post by Lars Juhl Jensen, cross-posted from his blog. I use Impactstory to track altmetrics for my publications. I believe they did the right thing by not asking me to maintain yet another online profile and instead building...

RAIN v1

Alexander Junge, Jan C. Refsgaard, Christian Garde, Xiaoyong Pan, Alberto Santos, Ferhat Alkan, Christian Anthon, Christian Von Mering, Christopher T. Workman, Lars Juhl Jensen & Jan Gorodkin
RAIN: RNA–protein Association and Interaction Networks
RAIN integrates non-coding RNA (ncRNA) and protein interaction networks in an easily accessible web interface. It contains three types of ncRNA associations: microRNA-target, ncRNA-protein and ncRNA-ncRNA interactions and combines them with protein-protein interaction available in the STRING database. ncRNA associations cover four model organisms and are extracted from experimental data, automatic literature mining and curated examples. For miRNAs, we further include precomputed target predictions. 

RAIN v1

Alexander Junge, Jan C. Refsgaard, Christian Garde, Xiaoyong Pan, Alberto Santos, Ferhat Alkan, Christian Anthon, Christian Von Mering, Christopher T. Workman, Lars Juhl Jensen & Jan Gorodkin
RAIN: RNA–protein Association and Interaction Networks
RAIN integrates non-coding RNA (ncRNA) and protein interaction networks in an easily accessible web interface. It contains three types of ncRNA associations: microRNA-target, ncRNA-protein and ncRNA-ncRNA interactions and combines them with protein-protein interaction available in the STRING database. ncRNA associations cover four model organisms and are extracted from experimental data, automatic literature mining and curated examples. For miRNAs, we further include precomputed target predictions. 

DISEASES v1

Sune Pletscher-Frankild, Albert Pallejà, Kalliopi Tsafou, Janos X. Binder & Lars Juhl Jensen

TISSUES v1

Alberto Santos, Kalliopi Tsafou, Sune Pletscher-Frankild, Christian Stolte, Seán I. O'Donoghue & Lars Juhl Jensen

COMPARTMENTS v1

Janos X. Binder, Sune Pletscher-Frankild, Kalliopi Tsafou, Christian Stolte, Seán I. O'Donoghue, Reinhard Schneider & Lars Juhl Jensen

COMPARTMENTS benchmark

Janos X. Binder, Sune Pletscher-Frankild, Kalliopi Tsafou, Christian Stolte, Seán I. O'Donoghue, Reinhard Schneider & Lars Juhl Jensen

DISEASES v1 (human, text mining, filtered)

Sune Pletscher-Frankild, Albert Pallejà, Kalliopi Tsafou, Janos X. Binder & Lars Juhl Jensen

DISEASES v1 (human, text mining, full)

Sune Pletscher-Frankild, Albert Pallejà, Kalliopi Tsafou, Janos X. Binder & Lars Juhl Jensen

DISEASES v1 (human, experiments, filtered)

Sune Pletscher-Frankild, Albert Pallejà, Kalliopi Tsafou, Janos X. Binder & Lars Juhl Jensen

DISEASES v1 (human, experiments, full)

Sune Pletscher-Frankild, Albert Pallejà, Janos X. Binder, Kalliopi Tsafou & Lars Juhl Jensen

DISEASES v1 (human, knowledge, filtered)

Sune Pletscher-Frankild, Albert Pallejà, Kalliopi Tsafou, Janos X. Binder & Lars Juhl Jensen

DISEASES v1 (human, knowledge, full)

Sune Pletscher-Frankild, Albert Pallejà, Kalliopi Tsafou, Janos X. Binder & Lars Juhl Jensen

TISSUES v1 (human, text mining, filtered)

Alberto Santos, Kalliopi Tsafou, Sune Pletscher-Frankild, Christian Stolte, Seán I. O'Donoghue & Lars Juhl Jensen

TISSUES v1 (human, experiments, filtered)

Alberto Santos, Kalliopi Tsafou, Sune Pletscher-Frankild, Christian Stolte, Seán I. O'Donoghue & Lars Juhl Jensen

Resource Types

  • Dataset
    84
  • Collection
    8
  • Image
    2
  • Text
    1

Publication Year

  • 2017
    10
  • 2016
    3
  • 2015
    82

Data Centers

  • figshare Academic Research System
    94
  • DataCite
    1