Publications
50 latest publications
[1]
Chang, Y. C., Gnann, C., Steimbach, R. R., Bayer, F. P., Lechner, S., Sakhteman, A. ... Kuster, B. (2024).
Decrypting lysine deacetylase inhibitor action and protein modifications by dose-resolved proteomics.
Cell Reports, 43(6).
[2]
Monteiro, F. L., Stepanauskaite, L., Archer, A. & Williams, C. (2024).
Estrogen receptor beta expression and role in cancers.
Journal of Steroid Biochemistry and Molecular Biology, 242.
[3]
King, M. R., Ruff, K. M., Lin, A. Z., Pant, A., Farag, M., Lalmansingh, J. M. ... Pappu, R. V. (2024).
Macromolecular condensation organizes nucleolar sub-phases to set up a pH gradient.
Cell, 187(8), 24-1889.
[4]
Sariyar, S. (2024).
Spatiotemporal Profiling of Human Development Using Multiplexed Imaging
(Doctoral thesis , KTH Royal Institute of Technology, Sweden, TRITA-CBH-FOU 2024:14). Retrieved from https://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-345248.
[5]
Öling, S., Struck, E., Noreen-Thorsen, M., Zwahlen, M., von Feilitzen, K., Odeberg, J. ... Butler, L. M. (2024).
A human stomach cell type transcriptome atlas.
BMC Biology, 22(1).
[6]
Dou, D. R., Zhao, Y., Belk, J. A., Zhao, Y., Casey, K. M., Chen, D. C. ... Chang, H. Y. (2024).
Xist ribonucleoproteins promote female sex-biased autoimmunity.
Cell, 187(3), 16-733.
[7]
Struck, E. C., Belova, T., Hsieh, P. H., Odeberg, J., Kuijjer, M. L., Dusart, P. & Butler, L. M. (2024).
Global Transcriptome Analysis Reveals Distinct Phases of the Endothelial Response to TNF.
Journal of Immunology, 212(1), 117-129.
[8]
Hansen, J. N. (2024).
Morphometric Analyses of Macrophages.
In Tissue-Resident Macrophages: Methods and Protocols (pp. 519-541). Springer Nature.
[9]
Birgersson, M., Indukuri, R., Lindquist, L., Stepanauskaite, L., Luo, Q., Deng, Q. ... Williams, C. (2023).
Ovarian ERβ cistrome and transcriptome reveal chromatin interaction with LRH-1.
BMC Biology, 21(1).
[10]
Quardokus, E. M., Martinez Casals, A., Björklund, F., Käller Lundberg, E., Radtke, A. J. & et al., (2023).
Organ Mapping Antibody Panels : a community resource for standardized multiplexed tissue imaging.
Nature Methods, 20(8), 1174-1178.
[11]
Johnson, G. T., Agmon, E., Akamatsu, M., Käller Lundberg, E., Lyons, B., Ouyang, W. ... Horwitz, R. (2023).
Building the next generation of virtual cells to understand cellular biology.
Biophysical Journal, 122(18), 3560-3569.
[12]
Chemaly, M., Marlevi, D., Iglesias, M. J., Lengquist, M., Kronqvist, M., Bos, D. ... Hedin, U. (2023).
Biliverdin Reductase B is a Plasma Biomarker for Intraplaque Hemorrhage and A Predictor of Ischemic Stroke in Symptomatic Carotid Stenosis.
Atherosclerosis, 379, S180-S180.
[13]
Zhang, Y., Ripley, B., Ouyang, W., Coloma, R., Sturtz, M., Upton, E. ... Radoshevich, L. (2023).
ISG15 modification of the Arp2/3 complex restricts pathogen spread.
Molecular Biology of the Cell, 34(2), 818-818.
[14]
Kuodyte, K., Galea, G., Käller Lundberg, E. & Pepperkok, R. (2023).
The Golgi complex serves as a platform for the DNA damage response pathways.
Molecular Biology of the Cell, 34(2), 209-209.
[15]
Kuodyte, K., Galea, G., Käller Lundberg, E. & Pepperkok, R. (2023).
The Golgi complex serves as a platform for the DNA damage response pathways.
Molecular Biology of the Cell, 34(2), 63-63.
[16]
Jain, Y., Godwin, L. L., Joshi, S., Mandarapu, S., Le, T., Lindskog, C. ... Börner, K. (2023).
Segmenting functional tissue units across human organs using community-driven development of generalizable machine learning algorithms.
Nature Communications, 14(1).
[17]
Cheng, Y., Lu, X., Li, F., Chen, Z., Zhang, Y., Han, Q. ... Xia, W. (2023).
NDFIP1 limits cellular TAZ accumulation via exosomal sorting to inhibit NSCLC proliferation.
Protein & Cell, 14(2), 123-136.
[18]
Birgersson, M., Indukuri, R., Antonson, P., Nalvarte, I., Archer, A. & Williams, C. (2023).
ERβ in Granulosa Cell Tumors and Its Clinical Potential.
Endocrinology, 164(6).
[19]
Jain, S., Birgersson, M., Kipen, J., Jaldén, J., Stemme, G., Niklaus, F. ... Herland, A. (2023).
Sensing of protein and DNA complexes using solid-state nanopores.
Biophysical Journal, 122(3S1).
[20]
Chemaly, M., Marlevi, D., Iglesias, M. J., Lengquist, M., Kronqvist, M., Bos, D. ... Hedin, U. (2023).
Biliverdin Reductase B Is a Plasma Biomarker for Intraplaque Hemorrhage and a Predictor of Ischemic Stroke in Patients with Symptomatic Carotid Atherosclerosis.
Biomolecules, 13(6).
[21]
Iglesias, M. J., Sanchez-Rivera, L., Ibrahim-Kosta, M., Naudin, C., Munsch, G., Goumidi, L. ... Odeberg, J. (2023).
Elevated plasma complement factor H related 5 protein is associated with venous thromboembolism.
Nature Communications, 14(1).
[22]
Thrikawala, S., Mesmar, F., Bhattacharya, B., Muhsen, M., Mukhopadhyay, S., Flores, S. ... Bondesson, M. (2023).
Triazole fungicides induce adipogenesis and repress osteoblastogenesis in zebrafish.
Toxicological Sciences, 193(2), 119-130.
[23]
Vivekanand, A. C., Atasoy, M., Williams, C. & Cetecioglu, Z. (2023).
Statistical Analysis of SARS-CoV-2 Using Wastewater-Based Data of Stockholm, Sweden.
International Journal of Environmental Research and Public Health, 20(5).
[24]
Sountoulidis, A., Marco Salas, S., Braun, E., Avenel, C., Bergenstråhle, J., Theelke, J. ... Samakovlis, C. (2023).
A topographic atlas defines developmental origins of cell heterogeneity in the human embryonic lung.
Nature Cell Biology.
[25]
Geroldinger-Simic, M., Bayati, S., Pohjanen, E., Sepp, N., Nilsson, P. & Pin, E. (2023).
Autoantibodies against PIP4K2B and AKT3 Are Associated with Skin and Lung Fibrosis in Patients with Systemic Sclerosis.
International Journal of Molecular Sciences, 24(6).
[26]
Hases, L., Stepanauskaite, L., Birgersson, M., Brusselaers, N., Schuppe-Koistinen, I., Archer, A. ... Williams, C. (2023).
High-fat diet and estrogen modulate the gut microbiota in a sex-dependent manner in mice.
Communications Biology, 6(1).
[27]
Perez-Zabaleta, M., Archer, A., Khatami, K., Jafferali, M. H., Nandy, P., Atasoy, M. ... Cetecioglu, Z. (2023).
Long-term SARS-CoV-2 surveillance in the wastewater of Stockholm : What lessons can be learned from the Swedish perspective?.
Science of the Total Environment, 858.
[28]
Giovannelli, P., Ramaraj, P. & Williams, C. (2022).
Editorial : Role of Sex Steroids and Their Receptor in Cancers.
Frontiers in Endocrinology, 13.
[29]
Ouyang, W., Bai, J., Singh, M. K., Leterrier, C., Barthelemy, P., Barnett, S. F. H. ... Zimmer, C. (2022).
ShareLoc — an open platform for sharing localization microscopy data.
Nature Methods, 19(11), 1331-1333.
[30]
Hases, L., Archer, A. & Williams, C. (2022).
ERβ and Inflammation.
In Advances in Experimental Medicine and Biology (pp. 213-225). Springer Nature.
[31]
Andrews, B., Chang, J. -., Collinson, L., Li, D., Lundberg, E., Mahamid, J. ... Zaritsky, A. (2022).
Imaging cell biology.
Nature Cell Biology, 24(8), 1180-1185.
[32]
Mund, A., Coscia, F., Kriston, A., Hollandi, R., Kovács, F., Brunner, A. -. ... Mann, M. (2022).
Deep Visual Proteomics defines single-cell identity and heterogeneity.
Nature Biotechnology, 40(8), 1231-1240.
[33]
Kustatscher, G., Collins, T., Gingras, A. -., Guo, T., Hermjakob, H., Ideker, T. ... Rappsilber, J. (2022).
Understudied proteins : opportunities and challenges for functional proteomics.
Nature Methods, 19(7), 774-779.
[34]
Kustatscher, G., Collins, T., Gingras, A. -., Guo, T., Hermjakob, H., Ideker, T. ... Rappsilber, J. (2022).
An open invitation to the Understudied Proteins Initiative.
Nature Biotechnology, 40(6), 815-817.
[35]
Winsnes, C. F. (2022).
On computational methods for spatial mapping of the human proteome
(Doctoral thesis , KTH Royal Institute of Technology, Stockholm, TRITA-CBH-FOU 2022:65). Retrieved from https://urn.kb.se/resolve?urn=urn:nbn:se:kth:diva-321477.
[36]
Hases, L., Birgersson, M., Indukuri, R., Archer, A. & Williams, C. (2022).
Colitis Induces Sex-Specific Intestinal Transcriptomic Responses in Mice.
International Journal of Molecular Sciences, 23(18), 10408.
[37]
Burnum-Johnson, K. E., Conrads, T. P., Drake, R. R., Herr, A. E., Iyengar, R., Kelly, R. T. ... Kelleher, N. L. (2022).
New Views of Old Proteins : Clarifying the Enigmatic Proteome.
Molecular & Cellular Proteomics, 21(7).
[38]
Norreen-Thorsen, M., Struck, E. C., Oling, S., Zwahlen, M., von Feilitzen, K., Odeberg, J. ... Butler, L. M. (2022).
A human adipose tissue cell-type transcriptome atlas.
Cell Reports, 40(2).
[39]
Song, D., He, H., Indukuri, R., Huang, Z., Stepanauskaite, L., Sinha, I. ... Williams, C. (2022).
ER alpha and ER beta Homodimers in the Same Cellular Context Regulate Distinct Transcriptomes and Functions.
Frontiers in Endocrinology, 13.
[40]
Huang, D., Huang, Z., Indukuri, R., Revanna, C. B., Berglund, M., Guan, J. ... Okret, S. (2022).
Estrogen Receptor beta (ESR2) Transcriptome and Chromatin Binding in a Mantle Cell Lymphoma Tumor Model Reveal the Tumor-Suppressing Mechanisms of Estrogens.
Cancers, 14(13), 3098.
[41]
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.
[42]
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.
[43]
Edfors, F., Iglesias, M. J., Butler, L. M. & Odeberg, J. (2022).
Proteomics in thrombosis research.
RESEARCH AND PRACTICE IN THROMBOSIS AND HAEMOSTASIS, 6(3).
[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]
Birgersson, M., Katona, B., Lindskog, C., Pontén, F. & Williams, C. (2022).
Antibody Validation for Estrogen Receptor Beta.
Methods in Molecular Biology, 2418, 1-23.
[46]
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.
[47]
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.
[48]
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-+.
[49]
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.
[50]
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).