Publications

50 latest publications

[1]

Ahmed, M., Gustafsson, B., Aldi, S., Dusart, P., Egri, G., Butler, L. M. ... Caidahl, K. (2019). Molecular Imaging of a New Multimodal Microbubble for Adhesion Molecule Targeting. Cellular and Molecular Bioengineering, 12(1), 15-32.

[2]

Ibrahim, A., Hugerth, L. W., Hases, L., Saxena, A., Seifert, M., Thomas, Q. A. P. ... Williams, C. (2019). Colitis-induced colorectal cancer and intestinal epithelial estrogen receptor beta impact gut microbiota diversity. International Journal of Cancer, 144(12), 3086-3098.

[3]

Gonzalez-Granillo, M., Helguero, L. A., Alves, E., Archer, A., Savva, C., Pedrelli, M. ... Korach-Andre, M. (2019). Sex-specific lipid molecular signatures in obesity-associated metabolic dysfunctions revealed by lipidomic characterization in ob/ob mouse. Biology of Sex Differences, 10.

[4]

Ahmed, M., Baumgartner, R., Aldi, S., Dusart, P., Hedin, U., Gustafsson, B. & Caidahl, K. (2019). Human serum albumin-based probes for molecular targeting of macrophage scavenger receptors. International Journal of Nanomedicine, 14, 3723-3741.

[5]

Wang, J., Aydoğdu, E., Mukhopadhyay, S., Helguero, L. A. & Williams, C. (2019). A miR-206 regulated gene landscape enhances mammary epithelial differentiation. Journal of Cellular Physiology, 234(12), 22220-22233.

[6]

Lundberg, E. (2019). Dissecting the spatiotemporal subcellular distribution of the human proteome. European Journal of Human Genetics, 27, 764-764.

[7]

Dusart, P., Hallström, B. M., Renne, T., Odeberg, J., Uhlén, M. & Butler, L. M. (2019). A Systems-Based Map of Human Brain Cell-Type Enriched Genes and Malignancy-Associated Endothelial Changes. Cell reports, 29(6), 1690-+.

[8]

Lorenzo, H., Razzaq, M., Odeberg, J., Morange, P.-E., Saracco, J., Tregouet, D.-A., Thiebaut, R. (2019). High-dimensional multi-block analysis of factors associated with thrombin generation potential. In Proceedings 2019 IEEE 32ND INTERNATIONAL SYMPOSIUM ON COMPUTER-BASED MEDICAL SYSTEMS (CBMS). (pp. 453-458). IEEE.

[9]

Rykaczewska, U., Suur, B. E., Rohl, S., Razuvaev, A., Lengquist, M., Sabater-Lleal, M. ... Matic, L. (2020). PCSK6 Is a Key Protease in the Control of Smooth Muscle Cell Function in Vascular Remodeling. Circulation Research, 126(5), 571-585.

[10]

Perez, C. T., Ferraris, J., van Lunteren, J. A., Hellysaz, A., Iglesias, M. J. & Broberger, C. (2020). Adaptive Resetting of Tuberoinfundibular Dopamine (TIDA) Network Activity during Lactation in Mice. Journal of Neuroscience, 40(16), 3203-3216.

[11]

Hong, M.-G., Dodig-Crnkovic, T., Chen, X., Drobin, K., Lee, W., Wang, Y. ... Schwenk, J. M. (2020). Profiles of histidine-rich glycoprotein associate with age and risk of all-cause mortality. Life Science Alliance, 3(10), e202000817.

[12]

Hases, L., Archer, A., Indukuri, R., Birgersson, M., Savva, C., Korach-André, M. & Williams, C. (2020). High-fat diet and estrogen impacts the colon and its transcriptome in a sex-dependent manner. Scientific Reports, 10.

[13]

Hases, L., Indukuri, R., Birgersson, M., Nguyen-Vu, T., Lozano, R., Saxena, A. ... Williams, C. (2020). Intestinal estrogen receptor beta suppresses colon inflammation andtumorigenesis in both sexes. Cancer Letters, 492, 54-62.

[14]

Cheng, Y., Qu, X., Dong, Z., Zeng, Q., Ma, X., Jia, Y. ... Xia, W. (2020). Comparison of serum exosome isolation methods on co-precipitated free microRNAs. PeerJ, 8.

[15]

Hases, L. (2020). Estrogen signaling in colon inflammation and colorectal cancer (Doctoral thesis , Karolinska Institutet). Retrieved from http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-283338.

[16]

Stenström, L., Mahdessian, D., Gnann, C., Cesnik, A. J., Ouyang, W., Leonetti, M. D. ... Lundberg, E. (2020). Mapping the nucleolar proteome reveals a spatiotemporal organization related to intrinsic protein disorder. Molecular Systems Biology, 16(8).

[17]

Danielsson, F., Mahdessian, D., Axelsson, U., Sullivan, D. P., Uhlén, M., Andersen, J. S. ... Lundberg, E. (2020). Spatial Characterization of the Human Centrosome Proteome Opens Up New Horizons for a Small but Versatile Organelle. Proteomics.

[18]

Mahdessian, D., Cesnik, A. J., Gnann, C., Danielsson, F., Stenström, L., Arif, M. ... Lundberg, E. (2021). Spatiotemporal dissection of the cell cycle with single-cell proteogenomics. Nature, 590(7847).

[19]

Hases, L., Ibrahim, A., Chen, X., Liu, Y., Hartman, J. & Williams, C. (2021). The Importance of Sex in the Discovery of Colorectal Cancer Prognostic Biomarkers. International Journal of Molecular Sciences, 22(3).

[20]

Hases, L., Indukuri, R., Birgersson, M., Nguyen-Vu, T., Lozano, R., Saxena, A. ... Williams, C. (2020). Intestinal estrogen receptor beta suppresses colon inflammation and tumorigenesis in both sexes. Cancer Research, 80(16).

[21]

Gnann, C., Cesnik, A. J. & Lundberg, E. (2021). Illuminating Non-genetic Cellular Heterogeneity with Imaging-Based Spatial Proteomics. Trends in cancer, 7(4), 278-282.

[22]

Pinkard, H., Stuurman, N., Ivanov, I. E., Anthony, N. M., Ouyang, W., Li, B. ... Waller, L. (2021). Pycro-Manager : open-source software for customized and reproducible microscope control. Nature Methods, 18(3), 226-+.

[23]

Song, D., He, H., Sinha, I., Hases, L., Yan, F., Archer, A. ... Williams, C. (2021). Blocking Fra-1 sensitizes triple-negative breast cancer to PARP inhibitor. Cancer Letters, 506, 23-34.

[24]

Indukuri, R., Jafferali, M. H., Song, D., Damdimopoulos, A., Hases, L., Zhao, C. & Williams, C. (2021). Genome-wide estrogen receptor β chromatin binding in humancolon cancer cells reveals its tumor suppressor activity. International Journal of Cancer.

[25]

Indukuri, R. (2021). Estrogen receptor beta transcriptional regulation: A potential mechanism for colon cancer prevention (Doctoral thesis , Karolinska Institutet, Stockholm). Retrieved from http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-293876.

[26]

Indukuri, R., Hases, L., Archer, A. & Williams, C. (2021). Estrogen Receptor Beta Influences the Inflammatory p65 Cistrome in Colon Cancer Cells. Frontiers in Endocrinology, 12, 1-13.

[27]

Razzaq, M., Iglesias, M. J., Ibrahim-Kosta, M., Goumidi, L., Soukarieh, O., Proust, C. ... Tregouet, D.-A. (2021). An artificial neural network approach integrating plasma proteomics and genetic data identifies PLXNA4 as a new susceptibility locus for pulmonary embolism. Scientific Reports, 11(1).

[28]

Karlsson, M., Zhang, C., Mear, L., Zhong, W., Digre, A., Katona, B. ... Lindskog, C. (2021). A single-cell type transcriptomics map of human tissues. Science Advances, 7(31).

[29]

Ouyang, W., Winsnes, C. F., Hjelmare, M., Åkesson, L., Xu, H., Sullivan, D. P. ... Et al, (2020). Analysis of the Human Protein Atlas Image Classification competition (vol 16, pg 1254, 2019). Nature Methods, 17(1), 115-115.

[30]

Ouyang, W., Winsnes, C. F., Hjelmare, M., Åkesson, L., Xu, H., Sullivan, D. P. ... Et al, (2020). Analysis of the Human Protein Atlas Image Classification competition (vol 54, pg 2112, 2019). Nature Methods, 17(2), 241-241.

[31]

Bäckström, A., Kugel, L., Gnann, C., Xu, H., Aslan, J. E., Lundberg, E. & Stadler, C. (2020). A Sample Preparation Protocol for High Throughput Immunofluorescence of Suspension Cells on an Adherent Surface. Journal of Histochemistry and Cytochemistry, 68(7), 473-489.

[32]

Stenström, L. (2021). The spatiotemporal protein landscape of human cells (Doctoral thesis , KTH Royal Institute of Technology, Stockholm, TRITA-CBH-FOU 2021:45). Retrieved from http://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-303152.

[33]

Iglesias, M. J., Kruse, L. D., Sanchez-Rivera, L., Enge, L., Dusart, P., Hong, M.-G. ... Butler, L. M. (2021). Identification of Endothelial Proteins in Plasma Associated With Cardiovascular Risk Factors. Arteriosclerosis, Thrombosis and Vascular Biology, 41(12), 2990-3004.

[34]

Frigo, D. E., Bondesson, M. & Williams, C. (2021). Nuclear receptors : from molecular mechanisms to therapeutics. In Williams, C Bondesson, M Frigo, DE (Ed.), Exploring Nuclear Receptors (pp. 847-856). Portland Press Ltd.

[35]

Bagheri, N., Carpenter, A. E., Lundberg, E., Plant, A. L. & Horwitz, R. (2022). Commentary The new era of quantitative cell imaging-challenges and opportunities. Molecular Cell, 82(2), 241-247.

[36]

Melani, R. D., Gerbasi, V. R., Anderson, L. C., Sikora, J. W., Toby, T. K., Hutton, J. E. ... Kelleher, N. L. (2022). The Blood Proteoform Atlas : A reference map of proteoforms in human hematopoietic cells. Science, 375(6579), 411-+.

[37]

Bendes, A., Dale, M., Mattsson, C., Dodig-Crnkovic, T., Iglesias, M. J., Schwenk, J. M. & Fredolini, C. (2021). Bead-Based Assays for Validating Proteomic Profiles in Body Fluids. In Protein Microarrays for Disease Analysis: Methods and Protocols (pp. 65-78). Springer Nature.

[38]

Iglesias, M. J., Schwenk, J. M. & Odeberg, J. (2021). Affinity Proteomics Assays for Cardiovascular and Atherosclerotic Disease Biomarkers. In Protein Microarrays for Disease Analysis: Methods and Protocols (pp. 163-179). Springer Nature.

[39]

Signorelli, M., Spitali, P., Al-Khalili Szigyarto, C., Tsonaka, R., Niks, E., Strauss, V. ... Consortium, T. M. (2021). Penalized regression calibration : A method for the prediction of survival outcomes using complex longitudinal and high-dimensional data. Statistics in Medicine, 40(27), 6178-6196.

[40]

LeDuc, R. D., Deutsch, E. W., Binz, P.-A., Fellers, R. T., Cesnik, A. J., Klein, J. A. ... Vizcaino, J. A. (2022). Proteomics Standards Initiative's ProForma 2.0 : Unifying the Encoding of Proteoforms and Peptidoforms br. Journal of Proteome Research, 21(4), 1189-1195.

[41]

Razzaq, M., Goumidi, L., Iglesias, M. J., Munsch, G., Bruzelius, M., Ibrahim-Kosta, M., Butler, L. M., Odeberg, J., Morange, P. -., Tregouet, D. A. (2021). Explainable Artificial Neural Network for Recurrent Venous Thromboembolism Based on Plasma Proteomics. In Computational Methods in Systems Biology19th International Conference, CMSB 2021, Bordeaux, France, September 22–24, 2021, Proceedings. (pp. 108-121). Springer Science and Business Media Deutschland GmbH.

[42]

Indukuri, R., Damdimopoulos, A. & Williams, C. (2022). An Optimized ChIP-Seq Protocol to Determine Chromatin Binding of Estrogen Receptor Beta. Methods in Molecular Biology, 2418, 203-221.

[43]

Birgersson, M., Katona, B., Lindskog, C., Pontén, F. & Williams, C. (2022). Antibody Validation for Estrogen Receptor Beta. Methods in Molecular Biology, 2418, 1-23.

[44]

Archer, A., Kutter, C. & Williams, C. (2022). Expression Profiles of Estrogen-Regulated MicroRNAs in Cancer Cells. Methods in Molecular Biology, 2418, 313-343.

[45]

Liu, Q., Simin, J., Debelius, J., Fall, K., Sadr-Azodi, O., Engstrand, L. ... Brusselaers, N. (2021). Menopausal hormone therapies and risk of colorectal cancer : a Swedish matched-cohort study. Alimentary Pharmacology and Therapeutics, 53(11), 1216-1225.

[46]

Simin, J., Liu, Q., Wang, X., Fall, K., Williams, C., Callens, S. ... Brusselaers, N. (2021). Prediagnostic use of estrogen-only therapy is associated with improved colorectal cancer survival in menopausal women : a Swedish population-based cohort study. Acta Oncologica, 60(7), 881-887.

[47]

Edfors, F., Iglesias, M. J., Butler, L. M. & Odeberg, J. (2022). Proteomics in thrombosis research. RESEARCH AND PRACTICE IN THROMBOSIS AND HAEMOSTASIS, 6(3).

[48]

Imbert, A., Ouyang, W., Safieddine, A., Coleno, E., Zimmer, C., Bertrand, E. ... Mueller, F. (2022). FISH-quant v2 : a scalable and modular tool for smFISH image analysis. RNA : A publication of the RNA Society, 28(6), 786-795.

[49]

Hickey, J. W., Neumann, E. K., Radtke, A. J., Camarillo, J. M., Beuschel, R. T., Albanese, A. ... Saka, S. K. (2022). Spatial mapping of protein composition and tissue organization : a primer for multiplexed antibody-based imaging. Nature Methods, 19(3), 284-295.

[50]

Rozenblatt-Rosen, O., Shin, J. W., Rood, J. E., Hupalowska, A., Ardlie, K., Clatworthy, M. ... Group, H. C. A. S. A. T. W. (2021). Building a high-quality Human Cell Atlas. Nature Biotechnology, 39(2), 149-153.