| no |
title |
author |
magazine |
year |
volume |
issue |
page(s) |
type |
| 1 |
A Cell-Cycle “Safe Space” for Surviving Chemotherapy
|
Arora, Mansi
|
|
2017
|
|
3 |
p. 161-162
|
article
|
| 2 |
A Chromatin Basis for Cell Lineage and Disease Risk in the Human Pancreas
|
Arda, H. Efsun
|
|
2018
|
|
3 |
p. 310-322.e4
|
article
|
| 3 |
A Clarion Call for Proteomics
|
Mak, H. Craig
|
|
2016
|
|
3 |
p. 135-136
2 p.
|
article
|
| 4 |
A complete allosteric map of a GTPase switch in its native cellular network
|
Mathy, Christopher J.P.
|
|
|
|
3 |
p. 237-246.e7
|
article
|
| 5 |
A Comprehensive Network Atlas Reveals That Turing Patterns Are Common but Not Robust
|
Scholes, Natalie S.
|
|
2019
|
|
3 |
p. 243-257.e4
|
article
|
| 6 |
Advancing Benchmarks for Genome Sequencing
|
Zook, Justin M.
|
|
2015
|
|
3 |
p. 176-177
2 p.
|
article
|
| 7 |
A High-Throughput Genome-Integrated Assay Reveals Spatial Dependencies Governing Tcf7l2 Binding
|
Szczesnik, Tomasz
|
|
|
|
3 |
p. 315-327.e5
|
article
|
| 8 |
Algorithmic Advances and Applications from RECOMB 2017
|
|
|
2017
|
|
3 |
p. 176-186
|
article
|
| 9 |
Aligning Single-Cell Developmental and Reprogramming Trajectories Identifies Molecular Determinants of Myogenic Reprogramming Outcome
|
Cacchiarelli, Davide
|
|
2018
|
|
3 |
p. 258-268.e3
|
article
|
| 10 |
A Live-Cell Screen for Altered Erk Dynamics Reveals Principles of Proliferative Control
|
Goglia, Alexander G.
|
|
|
|
3 |
p. 240-253.e6
|
article
|
| 11 |
Analysis of Body-wide Unfractionated Tissue Data to Identify a Core Human Endothelial Transcriptome
|
Butler, Lynn Marie
|
|
2016
|
|
3 |
p. 287-301.e3
300714 p.
|
article
|
| 12 |
Analysis of Ribosome Stalling and Translation Elongation Dynamics by Deep Learning
|
Zhang, Sai
|
|
2017
|
|
3 |
p. 212-220.e6
|
article
|
| 13 |
A novel network approach to multiscale biological regulation
|
Gigante, Guido
|
|
|
|
3 |
p. 177-179
|
article
|
| 14 |
A platform for experimental precision medicine: The extended BXD mouse family
|
Ashbrook, David G.
|
|
|
|
3 |
p. 235-247.e9
|
article
|
| 15 |
A Predictive 3D Multi-Scale Model of Biliary Fluid Dynamics in the Liver Lobule
|
Meyer, Kirstin
|
|
2017
|
|
3 |
p. 277-290.e9
|
article
|
| 16 |
A Scalable, Multiplexed Assay for Decoding GPCR-Ligand Interactions with RNA Sequencing
|
Jones, Eric M.
|
|
|
|
3 |
p. 254-260.e6
|
article
|
| 17 |
Astrocytes: Tailored to Support the Demand of Neural Circuits?
|
Rasmussen, Rune
|
|
2017
|
|
3 |
p. 165-167
|
article
|
| 18 |
A Systematic Evaluation of Methods for Tailoring Genome-Scale Metabolic Models
|
Opdam, Sjoerd
|
|
2017
|
|
3 |
p. 318-329.e6
|
article
|
| 19 |
Bringing Functional Genomics into Focus
|
Ledesma-Fernández, Elena
|
|
2016
|
|
3 |
p. 214-216
3 p.
|
article
|
| 20 |
Cell-Cycle Position of Single MYC-Driven Cancer Cells Dictates Their Susceptibility to a Chemotherapeutic Drug
|
Ryl, Tatsiana
|
|
2017
|
|
3 |
p. 237-250.e8
|
article
|
| 21 |
Cell Factory Engineering
|
Davy, Anne Mathilde
|
|
2017
|
|
3 |
p. 262-275
|
article
|
| 22 |
Cell Mechanics at the Rear Act to Steer the Direction of Cell Migration
|
Allen, Greg M.
|
|
|
|
3 |
p. 286-299.e4
|
article
|
| 23 |
Chromosome-wise Protein Interaction Patterns and Their Impact on Functional Implications of Large-Scale Genomic Aberrations
|
Kirk, Isa Kristina
|
|
2017
|
|
3 |
p. 357-364.e3
|
article
|
| 24 |
Circumventing neural damage in a C. elegans chemosensory circuit using genetically engineered synapses
|
Rabinowitch, Ithai
|
|
|
|
3 |
p. 263-271.e4
|
article
|
| 25 |
Clonal differences underlie variable responses to sequential and prolonged treatment
|
Schaff, Dylan L.
|
|
|
|
3 |
p. 213-226.e9
|
article
|
| 26 |
Clouds, Continuums, and Cells
|
Mak, H. Craig
|
|
2017
|
|
3 |
p. 251
|
article
|
| 27 |
Comparing Technological Development and Biological Evolution from a Network Perspective
|
Yan, Koon-Kiu
|
|
|
|
3 |
p. 219-222
|
article
|
| 28 |
Competitive Inhibition Can Linearize Dose-Response and Generate a Linear Rectifier
|
Savir, Yonatan
|
|
2015
|
|
3 |
p. 238-245
8 p.
|
article
|
| 29 |
Computational Recipes in Enzymology
|
Rust, Michael J.
|
|
2015
|
|
3 |
p. 178-179
2 p.
|
article
|
| 30 |
Construction and Analysis of Two Genome-Scale Deletion Libraries for Bacillus subtilis
|
Koo, Byoung-Mo
|
|
2017
|
|
3 |
p. 291-305.e7
|
article
|
| 31 |
Convolutions are competitive with transformers for protein sequence pretraining
|
Yang, Kevin K.
|
|
|
|
3 |
p. 286-294.e2
|
article
|
| 32 |
Coral: Clear and Customizable Visualization of Human Kinome Data
|
Metz, Kathleen S.
|
|
2018
|
|
3 |
p. 347-350.e1
|
article
|
| 33 |
Correcting the Mean-Variance Dependency for Differential Variability Testing Using Single-Cell RNA Sequencing Data
|
Eling, Nils
|
|
2018
|
|
3 |
p. 284-294.e12
|
article
|
| 34 |
Cross-Disciplinary Network Comparison: Matchmaking between Hairballs
|
Yan, Koon-Kiu
|
|
2016
|
|
3 |
p. 147-157
11 p.
|
article
|
| 35 |
Cross-evaluation of E. coli’s operon structures via a whole-cell model suggests alternative cellular benefits for low- versus high-expressing operons
|
Sun, Gwanggyu
|
|
|
|
3 |
p. 227-245.e7
|
article
|
| 36 |
Cross-Tissue Regulatory Gene Networks in Coronary Artery Disease
|
Talukdar, Husain A.
|
|
2016
|
|
3 |
p. 196-208
13 p.
|
article
|
| 37 |
DDOT: A Swiss Army Knife for Investigating Data-Driven Biological Ontologies
|
Yu, Michael Ku
|
|
|
|
3 |
p. 267-273.e3
|
article
|
| 38 |
Deciphering the Dark Matter of Complex Genetic Inheritance
|
Crawford, Nigel P.S.
|
|
2016
|
|
3 |
p. 144-146
3 p.
|
article
|
| 39 |
Deconvolution of the Human Endothelial Transcriptome
|
Rau, Christoph D.
|
|
2016
|
|
3 |
p. 218-220
3 p.
|
article
|
| 40 |
Deep Proteomics of Breast Cancer Cells Reveals that Metformin Rewires Signaling Networks Away from a Pro-growth State
|
Sacco, Francesca
|
|
2016
|
|
3 |
p. 159-171
13 p.
|
article
|
| 41 |
Determinants and Regulation of Protein Turnover in Yeast
|
Martin-Perez, Miguel
|
|
2017
|
|
3 |
p. 283-294.e5
|
article
|
| 42 |
Direct analysis of ribosome targeting illuminates thousand-fold regulation of translation initiation
|
Niederer, Rachel O.
|
|
|
|
3 |
p. 256-264.e3
|
article
|
| 43 |
Discriminatory Power of Combinatorial Antigen Recognition in Cancer T Cell Therapies
|
Dannenfelser, Ruth
|
|
|
|
3 |
p. 215-228.e5
|
article
|
| 44 |
Divergent Aging of Isogenic Yeast Cells Revealed through Single-Cell Phenotypic Dynamics
|
Jin, Meng
|
|
|
|
3 |
p. 242-253.e3
|
article
|
| 45 |
DNA Shape Features Improve Transcription Factor Binding Site Predictions In Vivo
|
Mathelier, Anthony
|
|
2016
|
|
3 |
p. 278-286.e4
2.859723E6 p.
|
article
|
| 46 |
DNA Structure Helps Predict Protein Binding
|
Stormo, Gary D.
|
|
2016
|
|
3 |
p. 216-218
3 p.
|
article
|
| 47 |
Engineered Fluorescent E. coli Lysogens Allow Live-Cell Imaging of Functional Prophage Induction Triggered inside Macrophages
|
Bodner, Katie
|
|
|
|
3 |
p. 254-264.e9
|
article
|
| 48 |
Engineering functional materials through bacteria-assisted living grafting
|
Zhu, Runtao
|
|
|
|
3 |
p. 264-274.e9
|
article
|
| 49 |
Engineering ligand-specific biosensors for aromatic amino acids and neurochemicals
|
Rottinghaus, Austin G.
|
|
|
|
3 |
p. 204-214.e4
|
article
|
| 50 |
Engineering Modular Viral Scaffolds for Targeted Bacterial Population Editing
|
Ando, Hiroki
|
|
2015
|
|
3 |
p. 187-196
10 p.
|
article
|
| 51 |
Escalating Threat Levels of Bacterial Infection Can Be Discriminated by Distinct MAPK and NF-κB Signaling Dynamics in Single Host Cells
|
Lane, Keara
|
|
|
|
3 |
p. 183-196.e4
|
article
|
| 52 |
Evaluation of Singer et al.: Technical points on analyzing viral replication kinetics in single cells
|
Chen, Xinyue
|
|
|
|
3 |
p. 205-206
|
article
|
| 53 |
Exploring Quantitative Yeast Phenomics with Single-Cell Analysis of DNA Damage Foci
|
Styles, Erin B.
|
|
2016
|
|
3 |
p. 264-277.e10
2.769999999737E12 p.
|
article
|
| 54 |
Folding Membrane Proteins by Deep Transfer Learning
|
Wang, Sheng
|
|
2017
|
|
3 |
p. 202-211.e3
|
article
|
| 55 |
Gene Regulatory Network Inference from Single-Cell Data Using Multivariate Information Measures
|
Chan, Thalia E.
|
|
2017
|
|
3 |
p. 251-267.e3
|
article
|
| 56 |
Gene-Specific Linear Trends Constrain Transcriptional Variability of the Toll-like Receptor Signaling
|
Bagnall, James
|
|
|
|
3 |
p. 300-314.e8
|
article
|
| 57 |
Genetic and Proteomic Interrogation of Lower Confidence Candidate Genes Reveals Signaling Networks in β-Catenin-Active Cancers
|
Rosenbluh, Joseph
|
|
2016
|
|
3 |
p. 302-316.e4
3.159699E6 p.
|
article
|
| 58 |
Guidelines for Developing Successful Short Advanced Courses in Systems Medicine and Systems Biology
|
Gomez-Cabrero, David
|
|
2017
|
|
3 |
p. 168-175
|
article
|
| 59 |
Gut-Liver Physiomimetics Reveal Paradoxical Modulation of IBD-Related Inflammation by Short-Chain Fatty Acids
|
Trapecar, Martin
|
|
|
|
3 |
p. 223-239.e9
|
article
|
| 60 |
Harnessing MOOCs for the Practice of Science
|
Mak, H. Craig
|
|
2017
|
|
3 |
p. 157
|
article
|
| 61 |
High immigration rates critical for establishing emigration-driven diversity in microbial communities
|
Chen, Xiaoli
|
|
|
|
3 |
p. 275-285.e4
|
article
|
| 62 |
High-Resolution Mapping of the Escherichia coli Chromosome Reveals Positions of High and Low Transcription
|
Scholz, Scott A.
|
|
|
|
3 |
p. 212-225.e9
|
article
|
| 63 |
High-Throughput Microfluidic Labyrinth for the Label-free Isolation of Circulating Tumor Cells
|
Lin, Eric
|
|
2017
|
|
3 |
p. 295-304.e4
|
article
|
| 64 |
How are methodological developments enabling insights into cell behavior in cellular communities?
|
|
|
|
|
3 |
p. 207-209
|
article
|
| 65 |
How Can Microfluidic and Microfabrication Approaches Make Experiments More Physiologically Relevant?
|
Sohn, Lydia L.
|
|
|
|
3 |
p. 209-211
|
article
|
| 66 |
Identification of Human Lineage-Specific Transcriptional Coregulators Enabled by a Glossary of Binding Modules and Tunable Genomic Backgrounds
|
Mariani, Luca
|
|
2017
|
|
3 |
p. 187-201.e7
|
article
|
| 67 |
Identification of Nascent Memory CD8 T Cells and Modeling of Their Ontogeny
|
Crauste, Fabien
|
|
2017
|
|
3 |
p. 306-317.e4
|
article
|
| 68 |
Illuminating Host-Mycobacterial Interactions with Genome-wide CRISPR Knockout and CRISPRi Screens
|
Lai, Yong
|
|
|
|
3 |
p. 239-251.e7
|
article
|
| 69 |
Inferring Causal Gene Regulatory Networks from Coupled Single-Cell Expression Dynamics Using Scribe
|
Qiu, Xiaojie
|
|
|
|
3 |
p. 265-274.e11
|
article
|
| 70 |
Inferring Metabolic Mechanisms of Interaction within a Defined Gut Microbiota
|
Medlock, Gregory L.
|
|
2018
|
|
3 |
p. 245-257.e7
|
article
|
| 71 |
Integrated, data-driven health management: A step closer to personalized and predictive healthcare
|
Powell, Joseph
|
|
|
|
3 |
p. 201-203
|
article
|
| 72 |
Integrated Transcriptome and Proteome Analyses Reveal Organ-Specific Proteome Deterioration in Old Rats
|
Ori, Alessandro
|
|
2015
|
|
3 |
p. 224-237
14 p.
|
article
|
| 73 |
Integrative proteomics identifies thousands of distinct, multi-epitope, and high-affinity nanobodies
|
Xiang, Yufei
|
|
|
|
3 |
p. 220-234.e9
|
article
|
| 74 |
Interdependence between EGFR and Phosphatases Spatially Established by Vesicular Dynamics Generates a Growth Factor Sensing and Responding Network
|
Stanoev, Angel
|
|
2018
|
|
3 |
p. 295-309.e11
|
article
|
| 75 |
In This Issue
|
|
|
2015
|
|
3 |
p. ix-
1 p.
|
article
|
| 76 |
Iterative Modeling Reveals Evidence of Sequential Transcriptional Control Mechanisms
|
Cheng, Christine S.
|
|
2017
|
|
3 |
p. 330-343.e5
|
article
|
| 77 |
Leading edge competition promotes context-dependent responses to receptor inputs to resolve directional dilemmas in neutrophil migration
|
Hadjitheodorou, Amalia
|
|
|
|
3 |
p. 196-209.e6
|
article
|
| 78 |
Machine Learning Predicts the Yeast Metabolome from the Quantitative Proteome of Kinase Knockouts
|
Zelezniak, Aleksej
|
|
2018
|
|
3 |
p. 269-283.e6
|
article
|
| 79 |
Mechanical Force Induces Phosphorylation-Mediated Signaling that Underlies Tissue Response and Robustness in Xenopus Embryos
|
Hashimoto, Yutaka
|
|
|
|
3 |
p. 226-241.e7
|
article
|
| 80 |
Metabolic Network Prediction of Drug Side Effects
|
Shaked, Itay
|
|
2016
|
|
3 |
p. 209-213
5 p.
|
article
|
| 81 |
Microbial Interaction Network Inference in Microfluidic Droplets
|
Hsu, Ryan H.
|
|
2019
|
|
3 |
p. 229-242.e4
|
article
|
| 82 |
Microscopy, Meet Big Data
|
Orth, Antony
|
|
2017
|
|
3 |
p. 260-261
|
article
|
| 83 |
Minimal synthetic enhancers reveal control of the probability of transcriptional engagement and its timing by a morphogen gradient
|
Alamos, Simon
|
|
|
|
3 |
p. 220-236.e3
|
article
|
| 84 |
Mitochondrial Fission and Fusion Dynamics Generate Efficient, Robust, and Evenly Distributed Network Topologies in Budding Yeast Cells
|
Viana, Matheus P.
|
|
|
|
3 |
p. 287-297.e5
|
article
|
| 85 |
Multi-layer CRISPRa/i circuits for dynamic genetic programs in cell-free and bacterial systems
|
Tickman, Benjamin I.
|
|
|
|
3 |
p. 215-229.e8
|
article
|
| 86 |
Multiomics and digital monitoring during lifestyle changes reveal independent dimensions of human biology and health
|
Marabita, Francesco
|
|
|
|
3 |
p. 241-255.e7
|
article
|
| 87 |
Multi-omics Quantification of Species Variation of Escherichia coli Links Molecular Features with Strain Phenotypes
|
Monk, Jonathan M.
|
|
2016
|
|
3 |
p. 238-251.e12
2.50999999999763E14 p.
|
article
|
| 88 |
Network-Based Coverage of Mutational Profiles Reveals Cancer Genes
|
Hristov, Borislav H.
|
|
2017
|
|
3 |
p. 221-229.e4
|
article
|
| 89 |
Network Topologies That Can Achieve Dual Function of Adaptation and Noise Attenuation
|
Qiao, Lingxia
|
|
2019
|
|
3 |
p. 271-285.e7
|
article
|
| 90 |
Nucleating Community around Scientific Values
|
Justman, Quincey
|
|
|
|
3 |
p. 169
|
article
|
| 91 |
Open-Source High-Throughput Phenomics of Bacterial Promoter-Reporter Strains
|
French, Shawn
|
|
2018
|
|
3 |
p. 339-346.e3
|
article
|
| 92 |
Optimized Sequence Library Design for Efficient In Vitro Interaction Mapping
|
Orenstein, Yaron
|
|
2017
|
|
3 |
p. 230-236.e5
|
article
|
| 93 |
Optimizing Cancer Genome Sequencing and Analysis
|
Griffith, Malachi
|
|
2015
|
|
3 |
p. 210-223
14 p.
|
article
|
| 94 |
Pan-Cancer Analysis of Mutation Hotspots in Protein Domains
|
Miller, Martin L.
|
|
2015
|
|
3 |
p. 197-209
13 p.
|
article
|
| 95 |
Permanganate/S1 Nuclease Footprinting Reveals Non-B DNA Structures with Regulatory Potential across a Mammalian Genome
|
Kouzine, Fedor
|
|
2017
|
|
3 |
p. 344-356.e7
|
article
|
| 96 |
Phenomics-Based Quantification of CRISPR-Induced Mosaicism in Zebrafish
|
Watson, Claire J.
|
|
|
|
3 |
p. 275-286.e5
|
article
|
| 97 |
Plasma Proteome Profiling to Assess Human Health and Disease
|
Geyer, Philipp E.
|
|
2016
|
|
3 |
p. 185-195
11 p.
|
article
|
| 98 |
Principles of Systems Biology, No. 9
|
|
|
2016
|
|
3 |
p. 211-213
3 p.
|
article
|
| 99 |
Principles of Systems Biology, No. 15
|
|
|
2017
|
|
3 |
p. 252-254
|
article
|
| 100 |
Principles of Systems Biology, No. 3
|
|
|
2016
|
|
3 |
p. 137-141
5 p.
|
article
|
| 101 |
Principles of Systems Biology, No. 21
|
|
|
2017
|
|
3 |
p. 158-160
|
article
|
| 102 |
Programming a Human Commensal Bacterium, Bacteroides thetaiotaomicron, to Sense and Respond to Stimuli in the Murine Gut Microbiota
|
Mimee, Mark
|
|
2016
|
|
3 |
p. 214-
1 p.
|
article
|
| 103 |
Proteogenomic Network Analysis of Context-Specific KRAS Signaling in Mouse-to-Human Cross-Species Translation
|
Brubaker, Douglas K.
|
|
2019
|
|
3 |
p. 258-270.e6
|
article
|
| 104 |
Proteomics-Based Monitoring of Pathway Activity Reveals that Blocking Diacylglycerol Biosynthesis Rescues from Alpha-Synuclein Toxicity
|
Soste, Martin
|
|
2019
|
|
3 |
p. 309-320.e8
|
article
|
| 105 |
Proteomics Moves into the Fast Lane
|
Riley, Nicholas M.
|
|
2016
|
|
3 |
p. 142-143
2 p.
|
article
|
| 106 |
Quantification, Dynamic Visualization, and Validation of Bias in ATAC-Seq Data with ataqv
|
Orchard, Peter
|
|
|
|
3 |
p. 298-306.e4
|
article
|
| 107 |
Quantifying stimulus-response specificity to probe the functional state of macrophages
|
Sheu, Katherine M.
|
|
|
|
3 |
p. 180-195.e5
|
article
|
| 108 |
Quantitative measurements of early alphaviral replication dynamics in single cells reveals the basis for superinfection exclusion
|
Singer, Zakary S.
|
|
|
|
3 |
p. 210-219.e3
|
article
|
| 109 |
Quantitative Yeast Genetic Interaction Profiling of Bacterial Effector Proteins Uncovers a Role for the Human Retromer in Salmonella Infection
|
Patrick, Kristin L.
|
|
2018
|
|
3 |
p. 323-338.e6
|
article
|
| 110 |
Rapid Inference of Direct Interactions in Large-Scale Ecological Networks from Heterogeneous Microbial Sequencing Data
|
Tackmann, Janko
|
|
2019
|
|
3 |
p. 286-296.e8
|
article
|
| 111 |
Reporting p Values
|
Huber, Wolfgang
|
|
|
|
3 |
p. 170-171
|
article
|
| 112 |
SERGIO: A Single-Cell Expression Simulator Guided by Gene Regulatory Networks
|
Dibaeinia, Payam
|
|
|
|
3 |
p. 252-271.e11
|
article
|
| 113 |
Simple Rules Determine Distinct Patterns of Branching Morphogenesis
|
Yu, Wei
|
|
2019
|
|
3 |
p. 221-227
|
article
|
| 114 |
Single-Cell Transcriptomics Reveals that Differentiation and Spatial Signatures Shape Epidermal and Hair Follicle Heterogeneity
|
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