Channel: Johns Hopkins University

This collection includes bioRxiv and medRxiv papers from authors at Johns Hopkins University.

7067 Articles

Pretrained gene representations transfer mean expression more broadly than spatial patterns in virtual spatial transcriptomics

Chen, T., Hicks, S. C.

10.64898/2026.09.15.751768 — Posted: 2026-10-01

The Genome In A Bottle HG002 assembly-based variant benchmark set enables comprehensive benchmarking of small and structural variants.

Olson, N. D., Dwarshuis, N., Hansen, N. F., Koren, S., Rhie, A., McDaniel, J. H., Wagner, J., Berry, G., Shafin, K., English, A., Saunders, C. T., Kundu, R., Holt, J. M., Freed, D., Abdulkadir, A. A., Daniels, C., Majidian, S., Paulin, L. F., Sedlazeck, F. J., Fleharty, M., Gao, Y., Denti, L., Brambrink, L., Carroll, A., Chang, P.-C., Cook, D. E., Kolesnikov, A., Catreux, S., Edlund, C., Han, J., Murray, L., Qiu, Y., Rossi, M., Scheffler, K., Truong, S., Wang, Y., Chikhi, R., Flores, C., Jaspez, D., Lorenzo-Salazar, J. M., Munoz-Barrera, A., Rubio-Rodriguez, L. A., Lin, M.-J., Vaddadi, K., Lan

10.64898/2026.09.23.752440 — Posted: 2026-10-01

Toward A Whole-Brain Interface Enabled by High-Resolution Surface Electrophysiology

Ho, E., Barth, K., Dister, J., Srivastava, A., Poole, A. J., Claudi, F., Lucas, M. V., Miller, J. S., Hettick, M., Byun, Y. W., Anushiravani, R., Murphy, M., Konrad, P., Bhatia, S., Adams, G., Carte, S., Ottonello, D., Bederson, J., Saez, I., Kellner, C., Tostaeva, G., Kopell, B. H., Cummins, D. D., Ulkatan, S., Ghatan, S., Cajigas, I., Pesaran, B., Borges, P. G., Qureshi, Q., Haggerty, J., Wang, Z., Crone, N., Bettegowda, C., Lehner, K., Luo, S., Angrick, M., Greene, R., Comair, Y., Aronson, J. P., Lawton, M., Prakash, P., Lei, T., Lee, J. H., Slutzky, M. W., Tate, M., Paulk, A., Dunn, G., Gr

10.64898/2026.09.24.754261 — Posted: 2026-10-01

Effects of 2025-2026 U.S. health and science policy changes on academic pulmonary and critical care medicine: an ASPIRE-PCCM prospective survey study

Iwashyna, T. J., Shu, Y., Ettman, C., Viglianti, E., Furfaro, D., Montemayor, K.

10.64898/2026.09.25.26364007 — Posted: 2026-10-01

The Effects of a Digital Exercise Therapy Application for Patients with Shoulder and Knee Pain During the COVID-19 Pandemic

McLaughlin, K. H., Gruner, M., Ahmadian, N., Patch, T., Zakria, B., Skolasky, R. L.

10.64898/2026.09.25.26364013 — Posted: 2026-10-01

Whole-genome characterization of Plasmodium falciparum population structure and drug resistance across Uganda and neighboring countries

Kiyaga, S., Mbabazi, M., Katairo, T., Asua, V., Semakuba, F. D., Nsengimaana, B., Tukwasibwe, S., Wiringilimaana, I., Nakasaanyaa, J., Mulondoa, J., Watyekele, E., Maiteki, C. S., Katete, D. P., Nabende, J. N., Jjingo, D., Mboowa, G., Batte, C., Sam, N., Kamya, M. R., Agaba, B. B., Ssewanyana, I., Aranda-Diazi, A., Ajogbasile, F. V., Davlieva, M., Dorsey, G., Rosenthal, P. J., Conrad, M. D., Greenhouse, B., Hathaway, N. J., Briggs, J.

10.64898/2026.09.27.754784 — Posted: 2026-09-30

Gene flux shapes diversity and evolution of the ancient 17q21.31 inversion polymorphism

Harringmeyer, O. S., Biddanda, A., McCoy, R. C., Akey, J. M.

10.64898/2026.09.28.755014 — Posted: 2026-09-30

Relevance-Based Prediction: A Transparent, Patient-SpecificApproach to Predicting Medical Outcomes

Robinson, C. L., Turkington, D., Lee, L., Kritzman, M., Yong, R. J.

10.64898/2026.09.28.26364225 — Posted: 2026-09-30

Determining gene specificity from multivariate single-cell RNA sequencing data

Swarna, N. P., Booeshaghi, A. S., Rebboah, E., Gordon, M. G., Kathail, P., Li, T., Alvarez, M., Ye, C. J., Wold, B. J., Mortazavi, A., Pachter, L.

10.1101/2025.11.21.689845 — Posted: 2026-09-29

PfPHAST: Plasmodium falciparum Public Health Amplicon Sequencing Tool, a Streamlined Panel for Malaria Genomic Surveillance

Semakuba, F. D., Nsengimaana, B., Katairo, T., Mbabazi, M., Murie, K., Hathaway, N., Wiringilimaana, I., Muwanika, J. V., Lum, K., Davlieva, M., Asua, V., Kiyaga, S., Tukwasibwe, S., Nakasaanya, J., Achom, K. B., Ayitewala, A., Mulondo, J., Watyekele, E., Nsobya, S. L., Kamya, M. R., Agaba, B. B., Rosenthal, P. J., Conrad, M. D., Ssewanyana, I., Greenhouse, B., Aranda-Diaz, A., Briggs, J.

10.64898/2026.09.26.754026 — Posted: 2026-09-29

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