Update publications.yml

_data/publications.yml

@@ -6,7 +6,6 @@
 - authors: "MG. Jones, D. Sun, KH. Min, WN. Colgan, L. Tian, JA. Weir, VZ. Chen, W. Koblan, KE. Yost, N. Mathey-Andrews, A.J.C. Russell, RR. Stickels, KS. Balderrama, WM. Rideout III, HY. Chang, T. Jacks, F. Chen†, JS. Weissman†, N. Yosef† , Dian Yang†"
   title: "Spatiotemporal lineage tracing reveals the dynamic spatial architecture of tumor growth and metastasis"
   details: bioRxiv
-  year: 2024
   pmid:
   pmcid:
   openaccess:
@@ -22,7 +21,6 @@
 - authors: "C. Wang\\*, A. Wagner\\*, J. Fessler\\*, D. DeTomaso, S. Zaghouani, Y. Zhou, K. Pierce, RA. Sobel, C. Clish, Nir Yosef†, VK. Kuchroo†"
   title: "The glycolytic reaction PGAM unexpectedly restrains Th17 pathogenicity and Th17-dependent autoimmunity"
   details: bioRxiv
-  year: 2024
   pmid:
   pmcid:
   openaccess:
@@ -38,7 +36,6 @@
 - authors: "P. Boyeau\\*, J. Hong\\*, A. Gayoso, M. Kim, JL. McFaline-Figueroa, M. Jordan, E. Azizi, C. Ergen†, N. Yosef†"
   title: "Deep generative modeling for quantifying sample-level heterogeneity in single-cell omics"
   details: bioRxiv
-  year: 2024
   pmid:
   pmcid:
   openaccess:
@@ -54,7 +51,6 @@
 - authors: "C. Ergen, VV. Pour Amiri, M. Kim, A. Streets, A. Gayoso, N. Yosef"
   title: "Scvi-hub: an actionable repository for model-driven single cell analysis"
   details: bioRxiv
-  year: 2024
   pmid:
   pmcid:
   openaccess:
@@ -67,12 +63,9 @@
   preprint: true
   scvitools: true
 
-
-
 - authors: "S. Prillo, A. Ravoor, N. Yosef†, YS. Song†"
   title: "ConvexML: Scalable and accurate inference of single-cell chronograms from CRISPR/Cas9 lineage tracing data"
   details: bioRxiv
-  year: 2024
   pmid:
   pmcid:
   openaccess:
@@ -85,12 +78,9 @@
   preprint: true
   scvitools: false
 
-
-
 - authors: "P. Boyeau, AN. Angelopoulos, N. Yosef, J. Malik, MI. Jordan"
   title: "AutoEval Done Right: Using Synthetic Data for Model Evaluation"
   details: arXiv
-  year: 2024
   pmid:
   pmcid:
   openaccess:
@@ -103,13 +93,9 @@
   preprint: true
   scvitools: true
 
-
-
-
 - authors: "SB. Wells\\*, DB. Rainbow\\*, M. Mark\\*, PA. Szabo\\*, C. Ergen\\*, A. Maceiras\\*, DP. Caron, E. Rahmani, E. Benuck, V. Pour Amiri, D. Chen, A. Wagner, SK. Howlett, LB. Jarvis, KL. Ellis, M. Kubota, R. Matsumoto, K. Mahbubani, K. Saeb-Parsy, C. Dominguez-Conde, L. Richardson, C. Xu, S. Li, L. Mamanova, L. Bolt, A. Wilk, SA. Teichmann†, DL. Farber†, PA. Sims†, JL. Jones†, N. Yosef†"
   title: "Multimodal profiling reveals tissue-directed signatures of human immune cells altered with age"
   details: bioRxiv
-  year: 2024
   pmid:
   pmcid:
   openaccess:
@@ -124,14 +110,15 @@
   scvitools: false
 
 # 2025
+
 - authors: "S. Prillo, K. An, W. Wu, I. Kristanto, MG. Jones, YS. Song† , N. Yosef†"
   title: "Tree reconstruction guarantees from CRISPR-Cas9 lineage tracing data using Neighbor-Joining"
   details: RECOMB
   year: 2025
   pmid:
   pmcid:
   openaccess:
-  doi: 
+  doi: 10.1101/2024.08.27.610007
   file:
   filetype:
   biorxiv: 
@@ -144,16 +131,17 @@
 # 2024
 
 - authors: "P. Boyeau, S. Bates, C. Ergen, MI. Jordan, N. Yosef"
-  title: "Calibrated Identification of Feature Dependencies in Single-cell Multiomics "
-  details: Genome Biology (in press)
+  title: "VI-VS: Calibrated Identification of Feature Dependencies in Single-cell Multiomics "
+  details: Genome Biology 
   year: 2024
   pmid:
   pmcid:
   openaccess:
-  doi: 10.1101/2023.11.03.565520
+  doi: 10.1186/s13059-024-03419-z
   file:
   filetype:
-  biorxiv: https://www.biorxiv.org/content/10.1101/2023.11.03.565520v1
+  github: https://github.com/YosefLab/VIVS
+  biorxiv: 
   arxiv:
   contentshare:
   preprint: false
@@ -162,16 +150,16 @@
 
 - authors: "C. Ergen, G. Xing, C. Xu, M. Jayasuriya, E. McGeever, A.O. Pisco, A. Streets, N. Yosef"
   title: "Consensus prediction of cell type labels with popV"
-  details: Nature Genetics (in press)
+  details: Nature Genetics 
   year: 2024
   pmid:
   pmcid:
   openaccess:
-  doi: 10.1101/2023.08.18.553912
+  doi: 10.1038/s41588-024-01993-3
   file:
   filetype:
   github:  https://github.com/YosefLab/PopV
-  biorxiv: https://www.biorxiv.org/content/10.1101/2023.08.18.553912v1
+  biorxiv: 
   arxiv:
   contentshare:
   preprint: false