User profiles for N. Brandes

Nadav Brandes

UCSF
Verified email at ucsf.edu
Cited by 1042

Thiol-based redox switches in eukaryotic proteins

N Brandes, S Schmitt, U Jakob - Antioxidants & redox signaling, 2009 - liebertpub.com
For many years, oxidative thiol modifications in cytosolic proteins were largely disregarded
as in vitro artifacts, and considered unlikely to play significant roles within the reducing …

[HTML][HTML] The language of proteins: NLP, machine learning & protein sequences

D Ofer, N Brandes, M Linial - Computational and Structural Biotechnology …, 2021 - Elsevier
… In addition to counting individual tokens, BoW can also count multi-token combinations,
with overlap (k-mers) or without (n-grams). Since they are largely the same, we refer to n-grams …

How is implementation research applied to advance health in low-income and middle-income countries?

O Alonge, DC Rodriguez, N Brandes, E Geng… - BMJ global …, 2019 - gh.bmj.com
… However, less than 5% of 791 Implementation Research (IR) studies reviewed for this
paper addressed objectives concerning issues such as scaling up (n=32) or sustainability (n=25). …

ProteinBERT: a universal deep-learning model of protein sequence and function

N Brandes, D Ofer, Y Peleg, N Rappoport… - …, 2022 - academic.oup.com
… A multi-head global attention layer is obtained by applying n heads independent single-…
outputs, obtaining an output of dimension n heads ⋅ d value (we used n heads = 4 across all 6 …

[HTML][HTML] Genome-wide prediction of disease variant effects with a deep protein language model

N Brandes, G Goldman, CH Wang, CJ Ye, V Ntranos - Nature Genetics, 2023 - nature.com
Predicting the effects of coding variants is a major challenge. While recent deep-learning
models have improved variant effect prediction accuracy, they cannot analyze all coding …

Implementation research: new imperatives and opportunities in global health

S Theobald, N Brandes, M Gyapong, S El-Saharty… - The Lancet, 2018 - thelancet.com
Implementation research is important in global health because it addresses the challenges
of the know–do gap in real-world settings and the practicalities of achieving national and …

[HTML][HTML] Factors associated with four or more antenatal care visits and its decline among pregnant women in Tanzania between 1999 and 2010

…, JA Callaghan-Koru, R Stevenson, N Brandes… - PloS one, 2014 - journals.plos.org
In Tanzania, the coverage of four or more antenatal care (ANC 4) visits among pregnant
women has declined over time. We conducted an exploratory analysis to identify factors …

[PDF][PDF] Mitigation of chromosome loss in clinical CRISPR-Cas9-engineered T cells

CA Tsuchida, N Brandes, R Bueno, M Trinidad… - Cell, 2023 - cell.com
… (G) Quantification of partial chromosome loss at the Cas9 target site across all gRNAs
from ddPCR (n = 3, n = 2 biological donors). Numbers next to each point represent the TRAC-…

Adsorption-induced conformational changes of proteins onto ceramic particles: differential scanning calorimetry and FTIR analysis

N Brandes, PB Welzel, C Werner, LW Kroh - Journal of colloid and interface …, 2006 - Elsevier
Three model proteins, bovine serum albumin, hen's egg lysozyme and bovine serum fibrinogen,
were adsorbed from aqueous solution onto finely dispersed ceramic particles, namely …

[HTML][HTML] Retinoic acid signaling is essential for pancreas development and promotes endocrine at the expense of exocrine cell differentiation in Xenopus

Y Chen, FC Pan, N Brandes, S Afelik, M Sölter… - Developmental …, 2004 - Elsevier
How and when the vertebrate endoderm is first subdivided into discrete progenitor cell
populations that will give rise to the different major organs, including pancreas and liver, are only …