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1

Joint Classifier and Feature Optimization for Comprehensive Cancer Diagnosis Using Gene Expression Data

Krishnapuram, Balaji, Carin, Lawrence, Hartemink, Alexander J.

Journal:

Journal of Computational Biology

Year:

2004

Language:

english

File:

PDF, 190 KB

english, 2004

2

Verification of systems biology research in the age of collaborative competition

Meyer, Pablo, Alexopoulos, Leonidas G, Bonk, Thomas, Califano, Andrea, Cho, Carolyn R, de la Fuente, Alberto, de Graaf, David, Hartemink, Alexander J, Hoeng, Julia, Ivanov, Nikolai V, Koeppl, Heinz, L

Journal:

Nature Biotechnology

Year:

2011

Language:

english

File:

PDF, 492 KB

english, 2011

3

Automated constraint-based nucleotide sequence selection for DNA computation

Alexander J. Hartemink, David K. Gifford, Julia Khodor

Journal:

Year:

1999

Language:

english

File:

PDF, 135 KB

english, 1999

4

Global control of cell-cycle transcription by coupled CDK and network oscillators

Orlando, David A., Lin, Charles Y., Bernard, Allister, Wang, Jean Y., Socolar, Joshua E. S., Iversen, Edwin S., Hartemink, Alexander J., Haase, Steven B.

Journal:

Year:

2008

Language:

english

File:

PDF, 803 KB

english, 2008

5

Reverse engineering gene regulatory networks

Hartemink, Alexander J

Journal:

Nature Biotechnology

Year:

2005

Language:

english

File:

PDF, 85 KB

english, 2005

6

[IEEE 2013 IEEE 10th International Symposium on Biomedical Imaging (ISBI 2013) - San Francisco, CA, USA (2013.04.7-2013.04.11)] 2013 IEEE 10th International Symposium on Biomedical Imaging - Cell-cycle phenotyping with conditional random fields: A case study in Saccharomyces cerevisiae

Mayhew, Michael B., Hartemink, Alexander J.

Year:

2013

Language:

english

File:

PDF, 157 KB

english, 2013

7

Genome-wide chromatin footprinting reveals changes in replication origin architecture induced by pre-RC assembly

Belsky, Jason A., MacAlpine, Heather K., Lubelsky, Yoav, Hartemink, Alexander J., MacAlpine, David M.

Journal:

Genes & Development

Year:

2015

Language:

english

File:

PDF, 1.63 MB

english, 2015

8

A Nucleosome-Guided Map of Transcription Factor Binding Sites in Yeast

Narlikar, Leelavati, Gordân, Raluca, Hartemink, Alexander J.

Journal:

PLoS Computational Biology

Year:

2007

Language:

english

File:

PDF, 671 KB

english, 2007

9

Computational Inference of Neural Information Flow Networks

Smith, V. Anne, Yu, Jing, Smulders, Tom V., Hartemink, Alexander J., Jarvis, Erich D.

Journal:

PLoS Computational Biology

Year:

2006

Language:

english

File:

PDF, 714 KB

english, 2006

10

SPIE Proceedings [SPIE BiOS 2001 The International Symposium on Biomedical Optics - San Jose, CA (Saturday 20 January 2001)] Microarrays: Optical Technologies and Informatics - Maximum-likelihood estimation of optimal scaling factors for expression array normalization

Hartemink, Alexander J., Gifford, David K., Jaakkola, Tommi S., Young, Richard A., Bittner, Michael L., Chen, Yidong, Dorsel, Andreas N., Dougherty, Edward R.

Year:

2001

Language:

english

File:

PDF, 1.47 MB

english, 2001

11

A BRANCHING PROCESS MODEL FOR FLOW CYTOMETRY AND BUDDING INDEX MEASUREMENTS IN CELL SYNCHRONY EXPERIMENTS

David A. Orlando, Edwin S. Iversen Jr., Alexander J. Hartemink and Steven B. Haase

Journal:

The Annals of Applied Statistics

Year:

2009

Language:

english

File:

PDF, 1.91 MB

english, 2009

12

A Probabilistic Model for Cell Cycle Distributions in Synchrony Experiments

Orlando, David, Lin, Charles Y., Bernard, Allister, Iversen, Edwin S., Hartemink, Alexander J., Haase, Steven B.

Journal:

Year:

2007

Language:

english

File:

PDF, 1.82 MB

english, 2007

13

Synergistic and tunable human gene activation by combinations of synthetic transcription factors

Perez-Pinera, Pablo, Ousterout, David G, Brunger, Jonathan M, Farin, Alicia M, Glass, Katherine A, Guilak, Farshid, Crawford, Gregory E, Hartemink, Alexander J, Gersbach, Charles A

Journal:

Year:

2013

Language:

english

File:

PDF, 451 KB

english, 2013

14

Establishment of Expression in the SHORTROOT-SCARECROW Transcriptional Cascade through Opposing Activities of Both Activators and Repressors

Sparks, Erin E., Drapek, Colleen, Gaudinier, Allison, Li, Song, Ansariola, Mitra, Shen, Ning, Hennacy, Jessica H., Zhang, Jingyuan, Turco, Gina, Petricka, Jalean J., Foret, Jessica, Hartemink, Alexand

Journal:

Developmental Cell

Year:

2016

Language:

english

File:

PDF, 3.27 MB

english, 2016

15

[WORLD SCIENTIFIC Proceedings of the Pacific Symposium - Maui, Hawaii (3 – 7 January 2006)] Biocomputing 2006 - FINDING DIAGNOSTIC BIOMARKERS IN PROTEOMIC SPECTRA

PRATAPA, PALLAVI N., PATZ, EDWARD F., HARTEMINK, ALEXANDER J.

Language:

english

File:

PDF, 922 KB

english

16

Characterization of dependencies between growth and division in budding yeast

Mayhew, Michael B., Iversen, Edwin S., Hartemink, Alexander J.

Journal:

Journal of The Royal Society Interface

Year:

2017

Language:

english

File:

PDF, 940 KB

english, 2017

17

Stereotactic Ablative Radiotherapy Induces Peripheral T-cell Activation in Early Stage Lung Cancer Patients

de Goeje, Pauline L., Smit, Egbert F, Waasdorp, Cynthia, Schram, Merel T B, Kaijen-Lambers, Margaretha E. H., Bezemer, Koen, de Mol, Mark, Hartemink, Koen J., Nuyttens, Joost J M E, Maat, Alexander P.

Journal:

American Journal of Respiratory and Critical Care Medicine

Year:

2017

Language:

english

File:

PDF, 543 KB

english, 2017

18

[WORLD SCIENTIFIC Proceedings of the Pacific Symposium - Kohala Coast, Hawaii, USA (3 – 7 January 2012)] Biocomputing 2012 - INTRINSIC DISORDER WITHIN AND FLANKING THE DNA-BINDING DOMAINS OF HUMAN TRANSCRIPTION FACTORS

GUO, XIN, BULYK, MARTHA L., HARTEMINK, ALEXANDER J.

Language:

english

File:

PDF, 841 KB

english

19

SLICER: inferring branched, nonlinear cellular trajectories from single cell RNA-seq data

Welch, Joshua D., Hartemink, Alexander J., Prins, Jan F.

Journal:

Year:

2016

Language:

english

File:

PDF, 1.59 MB

english, 2016

20

MATCHER: manifold alignment reveals correspondence between single cell transcriptome and epigenome dynamics

Welch, Joshua D., Hartemink, Alexander J., Prins, Jan F.

Journal:

Year:

2017

Language:

english

File:

PDF, 2.75 MB

english, 2017

21

Results of neoadjuvant chemo(radio)therapy and resection for stage IIIA non-small cell lung cancer in The Netherlands

Joosten, Pieter J. M., Damhuis, Ronald A. M., van Diessen, Judi N. A., de Langen, Joop A., Belderbos, Jose S. A., Smit, Egbert F., Klomp, Houke M., Veenhof, Alexander A. F. A., Hartemink, Koen J.

Journal:

Acta Oncologica

Year:

2020

File:

PDF, 792 KB

2020

22

Patients with cancer in the era of 2019 novel coronavirus disease

Hartemink, Koen J., van Akkooi, Alexander C.J., Houwink, Aletta P.I., Voest, Emile E.

Journal:

European Journal of Cancer

Year:

2020

File:

PDF, 230 KB

2020

23

Sa1311 RADIATION DOSE IS NOT ASSOCIATED WITH THE SEVERITY OF ANASTOMOTIC STENOSIS AFTER NEOADJUVANT CHEMORADIOTHERAPY AND SURGICAL RESECTION IN ESOPHAGEAL AND GASTROESOPHAGEAL JUNCTION CARCINOMA

Verheij, Floris S., Stam, Barbara, Voncken, Francine E., Koemans, Willem, van der Kaaij, Rosa T., Verbeek, Wieke, Hartemink, Koen, Cats, Annemieke, Veenhof, Alexander A., Van Sandick, Johanna, van Lee

Journal:

Gastrointestinal Endoscopy

Year:

2020

File:

PDF, 290 KB

2020

24

Is pneumonectomy justifiable for patients with a locoregional recurrence or persistent disease after curative intent chemoradiotherapy for locally advanced non-small cell lung cancer?

Joosten, Pieter J.M., Dickhoff, Chris, van der Noort, Vincent, Klomp, Houke M., van Diessen, Judi N.A., Dahele, Max, Bahce, Idris, Veenhof, Alexander A.F.A., Smit, Egbert F., Hartemink, Koen J.

Journal:

Year:

2020

File:

PDF, 2.21 MB

2020