Eriseld Krasniqi @KrasniqiEriseld
M.D. and Clinical Scientist at National Cancer Institute - Rome, Italy. Areas: Breast Ca., Cancer Genomics & Evolution, Artificial Intelligence (PhD Candidate) Rome, Lazio Joined March 2014-
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The Fast Marching algorithm is a generalization of Dijkstra’s algorithm. Computes the geodesic distance in O(n*log(n)) operation. Equivalently solves the non-linear Eikonal equation in a non-iterative way by front propagation. en.wikipedia.org/wiki/Fast_marc… nbviewer.jupyter.org/github/gpeyre/…
Nature Neuroscience Two common and distinct forms of variation in human functional brain networks nature.com/articles/s4159…
*Alice goes to a differentiable wonderland!* 🔥 I published a short free book on the design of neural networks, from convolutions to transformers, SSMs, and a few other topics. As a bonus, I tried to make it looking nice - any feedback is appreciated! sscardapane.it/alice-book
How DNA encodes the start of transcription A deep-learning model reveals the rules that define transcription initiation science.org/doi/10.1126/sc…
🧵 Just published: USPSTF recommends all women undergo routine #breastcancer screening every other year beginning at age 40, an update from the 2016 recommendation to start at age 50. ja.ma/3WmvqEO
Review paper out today @naturemethods on long-read #sequencing for #metagenomic: rdcu.be/dGeIj Great advancements on utility of @nanopore @PacBio forming novel insights in diversity and resolution. Great work by @D_Agustinho @fuyvei96 @traingene @BCM_HGSC @RiceCompSci
Interesting insights… (I’ve always been a fan of time-dependent Cox modelling) nature.com/articles/s4152…
Spatial transcriptomics reveals discrete tumour microenvironments and autocrine loops within ovarian cancer subclones | Nature Communications nature.com/articles/s4146…
Nature Communications Human connectome topology directs cortical traveling waves and shapes frequency gradients nature.com/articles/s4146…
In a patient explainer, @giuseppe_futia proposes potential solutions for integrating LLMs, knowledge graphs, and ontologies to enable a virtuous cycle to consistently improve named-entity disambiguation systems in the biomedical domain. buff.ly/3UuiH1p
Population-level comparisons of gene regulatory networks modeled on high-throughput single-cell transcriptomics data | Nature Computational Science nature.com/articles/s4358… #Bioinformatics
Neoadjuvant immune checkpoint blockade: A window of opportunity to advance cancer immunotherapy cell.com/cancer-cell/ab…
Spatiotemporal patterns of locus coeruleus integrity predict cortical tau and cognition nature.com/articles/s4358…
NextDenovo: an efficient error correction and accurate assembly tool for noisy long reads genomebiology.biomedcentral.com/articles/10.11…
Figeno: multi-region genomic figures with long-read support biorxiv.org/content/10.110…
Datopotamab Deruxtecan in Advanced or Metastatic HR+/HER2– and TNBC: TROPION-PanTumor01 Study 🔍85 pts, heavily pretreated HR+/HER2- and TNBC ORR➡️27% and 32% PFS➡️8.3 and 4.8 mo OS➡️ NR and 13.5 mo ILD➡️1 pts No treatment-related deaths @OncoAlert ascopubs.org/doi/10.1200/JC…
Can AI rewrite our human genome? ⌨️🧬 Today, we announce the successful editing of DNA in human cells with gene editors fully designed with AI. Not only that, we've decided to freely release the molecules under the @ProfluentBio OpenCRISPR initiative. Lots to unpack👇
Out on @JAMA_current 🚨 Tumor-Infiltrating Lymphocytes in Triple-Negative Breast Cancer In patients with early-stage Triple Negative #BreastCancer who did not undergo adjuvant or neoadjuvant chemotherapy🧪 ➡️breast cancer tissue with a higher abundance of TIL levels was…
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105 Followers 168 Following PhD student in Bioinformatics @DKFZ. Interested in cancer evolution, complex genomic rearrangements, epigenomics and AML.Lionel Page @page_eco
41K Followers 497 Following Professor UQ. Director @UQCUBES. Editor JESA. Tweets on economics, psychology, & society. Book: Optimally Irrational, https://t.co/6gTPWKTvihSantiesteban @s_santiesteban
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789 Followers 2K Following Medical oncologist. National Cancer Institute, Mexico CitySpatiotemporal patterns of locus coeruleus integrity predict cortical tau and cognition nature.com/articles/s4358…
Welcome CONGAS+, the new manuscript from our lab @UniTrieste. We extend and improve our first Bayesian model to detect CNAs from scRNAseq (PMID: 35298589), and work with both single-cell RNA and ATAC profiles onto the latent space of copy number clones. shorturl.at/gsDS5
Long-read sequencing and structural variant characterization in 1,019 samples from the 1000 Genomes Project biorxiv.org/cgi/content/sh… #biorxiv_genomic
Long non-coding RNAs: definitions, functions, challenges and recommendations 3 categories non-coding RNAs 1⃣<50 nt small RNA 2⃣50-500 nt PolIII/PolV transcripts, PolII small transcripts (snRNA snoRNA [miRNA?]) 3⃣>500 nt #LncRNA 🧐 @NatRevMCB 2024 nature.com/articles/s4158…
KMAP: Kmer Manifold Approximation and Projection for visualizing DNA sequences biorxiv.org/content/10.110…
TNBC is commonly treated as a unitary entity, although distinct subtypes have been recognized within this definition. Here, Dr. Hu et al. used IHC-based subtyping among 123 patients with TNBC, demonstrating distinct features and outcomes across subtypes. esmoopen.com/article/S2059-…
What are the treatment patterns and outcomes for patients with BRAF-mutant mCRC after progression to encorafenib/cetiximab? In this article, Dr. Germani et al. report data from a large 🇮🇹 cohort, suggesting improved outcomes when TT is administered early. esmoopen.com/article/S2059-…
Anti-EGFR Rechallenge in Refractory ctDNA RAS/BRAF wt mCRC @JAMANetworkOpen doi.org/10.1001/jamane… 🔎🇮🇹CAVE, VELO, CRICKET, CHRONOS; 119 pts, ≥3rd line 👉DCR 72%, mPFS 4, mOS 13,1 mo 👉Worse outcome in pts w/ liver mets 🧐re-challenge feasible in RAS/BRAF wt @myESMO
Free access to our editorial in @Annals_Oncology at the link⬇️ The role of adjuvant pembro is unclear, as KEYNOTE-522 did not foresee a randomisation at surgery It’s likely that adjuvant pembro has a lower impact compared to neoadj pembro @OncoAlert authors.elsevier.com/c/1iw3x3I2OQif…
At the #AACR24 #LiquidBiopsy minisymposium? Check out this study co-led by @SylvanBacaLab @DrChoueiri & Matt Freedman showing that a single liquid biopsy assay enables the detection of four epigenomic modifications in a large multi-cancer cohort nature.com/articles/s4159…
Scientific Data A large normative connectome for exploring the tractographic correlates of focal brain interventions nature.com/articles/s4159…
The PARTNER trial of neoadjuvant olaparib in TNBC (gBRCA wild cohort) ➡️Neo-adjuvant olaparib did not improve pCR rates, EFS or OS when added to carboplatin/paclitaxel and anthracycline chemotherapy in patients with TNBC @Nature @OncoAlert nature.com/articles/s4158…
The next chapter about transformers is up on YouTube, digging into the attention mechanism: youtu.be/eMlx5fFNoYc The model works with vectors representing tokens (think words), and this is the mechanism that allows those vectors to take in meaning from context.
For decades, beta blockers have been used routinely after heart attacks. A new randomized trial in people with preserved pump function (EF>50%) shows they're unnecessary, unhelpful nejm.org/doi/full/10.10… @NEJM #ACC24
Just out for #AACR24 A recent study sheds light on the efficacy of cancer drugs granted accelerated approval from 2013 to 2023. 💥Shockingly, 41% of these drugs didn't improve overall survival or quality of life after 5 years of follow-up, and 15% are still awaiting results.…
Just Out at #AACR24 🇺🇸 Study reveals promising strides in combating clear cell renal cell carcinoma (ccRCC) using cutting-edge CAR T-cell therapy. ✅CTX130, a novel CAR T-cell product targeting CD70, showcased impressive preclinical efficacy, achieving disease control in 81.3%…
gLM: Genomic language model predicts protein co-regulation and function nature.com/articles/s4146…