Lior Pachter
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Why Is Lior Pachter Influential?
(Suggest an Edit or Addition)According to Wikipedia, Lior Samuel Pachter is a computational biologist. He works at the California Institute of Technology, where he is the Bren Professor of Computational Biology. He has widely varied research interests including genomics, combinatorics, computational geometry, machine learning, scientific computing, and statistics.
Lior Pachter's Published Works
Number of citations in a given year to any of this author's works
Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author
Published Works
- Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation. (2010) (11813)
- TopHat: discovering splice junctions with RNA-Seq (2009) (11345)
- Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks (2012) (10622)
- Near-optimal probabilistic RNA-seq quantification (2016) (5582)
- Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project (2007) (5196)
- Initial sequencing and comparative analysis of the mouse genome. (2002) (4609)
- Differential analysis of gene regulation at transcript resolution with RNA-seq (2012) (3221)
- Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution (2004) (2417)
- Transcript assembly and abundance estimation from RNA-Seq reveals thousands of new transcripts and switching among isoforms (2010) (2281)
- Comprehensive, Integrative Genomic Analysis of Diffuse Lower-Grade Gliomas. (2015) (2211)
- The ENCODE (ENCyclopedia Of DNA Elements) Project (2004) (2194)
- Genome sequence of the Brown Norway rat yields insights into mammalian evolution (2004) (2053)
- Evolution of genes and genomes on the Drosophila phylogeny (2007) (1992)
- VISTA: computational tools for comparative genomics (2004) (1964)
- Disordered Microbial Communities in Asthmatic Airways (2010) (1446)
- Improving RNA-Seq expression estimates by correcting for fragment bias (2011) (1167)
- Differential analysis of RNA-seq incorporating quantification uncertainty (2016) (1058)
- VISTA : visualizing global DNA sequence alignments of arbitrary length (2000) (967)
- Identification of novel transcripts in annotated genomes using RNA-Seq (2011) (929)
- Streaming fragment assignment for real-time analysis of sequencing experiments (2012) (897)
- Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures (2007) (639)
- Population Genomics: Whole-Genome Analysis of Polymorphism and Divergence in Drosophila simulans (2007) (635)
- Phylogenetic Shadowing of Primate Sequences to Find Functional Regions of the Human Genome (2003) (571)
- Algebraic Statistics for Computational Biology (2005) (548)
- AVID: A global alignment program. (2003) (519)
- rVista for comparative sequence-based discovery of functional transcription factor binding sites. (2002) (468)
- A Genome-Wide Map of Conserved MicroRNA Targets in C. elegans (2006) (453)
- Human and mouse gene structure: comparative analysis and application to exon prediction (2000) (412)
- Bioinformatics for Whole-Genome Shotgun Sequencing of Microbial Communities (2005) (370)
- Multiplexed RNA structure characterization with selective 2′-hydroxyl acylation analyzed by primer extension sequencing (SHAPE-Seq) (2011) (366)
- Active conservation of noncoding sequences revealed by three-way species comparisons. (2000) (344)
- Fast Statistical Alignment (2009) (334)
- MAVID: constrained ancestral alignment of multiple sequences. (2003) (323)
- Viral Population Estimation Using Pyrosequencing (2007) (243)
- Strategies and tools for whole-genome alignments. (2003) (239)
- Identification and correction of systematic error in high-throughput sequence data (2011) (231)
- Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome. (2007) (221)
- Binding Site Turnover Produces Pervasive Quantitative Changes in Transcription Factor Binding between Closely Related Drosophila Species (2010) (197)
- SLAM: cross-species gene finding and alignment with a generalized pair hidden Markov model. (2003) (194)
- A multimodal cell census and atlas of the mammalian primary motor cortex (2020) (190)
- Models for transcript quantification from RNA-Seq (2011) (183)
- Single-cell transcriptomics reveals receptor transformations during olfactory neurogenesis (2015) (174)
- Near-optimal RNA-Seq quantification (2015) (153)
- Museum of spatial transcriptomics (2020) (153)
- A dynamic intron retention program enriched in RNA processing genes regulates gene expression during terminal erythropoiesis (2015) (148)
- Erratum: Near-optimal probabilistic RNA-seq quantification (2016) (147)
- Multimodal Analysis of Cell Types in a Hypothalamic Node Controlling Social Behavior (2019) (146)
- Modular, efficient and constant-memory single-cell RNA-seq preprocessing (2021) (143)
- Tropical geometry of statistical models. (2003) (137)
- Exon-Level Microarray Analyses Identify Alternative Splicing Programs in Breast Cancer (2010) (125)
- Modeling and automation of sequencing-based characterization of RNA structure (2011) (119)
- Genome methylation in D. melanogaster is found at specific short motifs and is independent of DNMT2 activity (2014) (118)
- Mapping and identification of essential gene functions on the X chromosome of Drosophila (2002) (118)
- A curated database reveals trends in single-cell transcriptomics (2019) (112)
- Multiple alignment by sequence annealing (2007) (107)
- Why Neighbor-Joining Works (2006) (102)
- Fast and accurate single-cell RNA-seq analysis by clustering of transcript-compatibility counts (2016) (100)
- Gene-level differential analysis at transcript-level resolution (2017) (98)
- A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex (2021) (94)
- A discriminative learning approach to differential expression analysis for single-cell RNA-seq (2019) (92)
- Applications of generalized pair hidden Markov models to alignment and gene finding problems (2001) (89)
- A Python library for probabilistic analysis of single-cell omics data (2022) (86)
- CGAL: computing genome assembly likelihoods (2013) (86)
- The Barcode, UMI, Set format and BUStools (2018) (86)
- Modular and efficient pre-processing of single-cell RNA-seq (2019) (85)
- Human Intestinal Tissue with Adult Stem Cell Properties Derived from Pluripotent Stem Cells (2014) (84)
- Interpretable factor models of single-cell RNA-seq via variational autoencoders (2019) (82)
- A dynamic alternative splicing program regulates gene expression during terminal erythropoiesis (2014) (82)
- Convex Rank Tests and Semigraphoids (2007) (79)
- UAV Task Assignment with Timing Constraints via Mixed-Integer Linear Programming (2004) (79)
- HMM sampling and applications to gene finding and alternative splicing (2003) (79)
- Sequence analysis TopHat : discovering splice junctions with RNA-Seq (2009) (75)
- Constrained Optimization for UAV Task Assignment (2004) (75)
- SHAPE–Seq: High‐Throughput RNA Structure Analysis (2012) (73)
- Reference based annotation with GeneMapper (2006) (72)
- Parametric inference for biological sequence analysis. (2004) (71)
- Pseudoalignment for metagenomic read assignment (2015) (71)
- EPISTASIS AND SHAPES OF FITNESS LANDSCAPES (2006) (70)
- Reconstructing trees from subtree weights (2003) (70)
- MAVID multiple alignment server (2003) (69)
- Association mapping from sequencing reads using k-mers (2018) (68)
- An integrated transcriptomic and epigenomic atlas of mouse primary motor cortex cell types (2020) (66)
- Analysis of epistatic interactions and fitness landscapes using a new geometric approach (2007) (66)
- Highly multiplexed single-cell RNA-seq by DNA oligonucleotide tagging of cellular proteins (2019) (64)
- Intraspecies sequence comparisons for annotating genomes. (2004) (64)
- Forcing matchings on square grids (1998) (63)
- Shape-based peak identification for ChIP-Seq (2010) (63)
- Evolution at the nucleotide level: the problem of multiple whole-genome alignment. (2006) (63)
- Comparison of Pattern Detection Methods in Microarray Time Series of the Segmentation Clock (2008) (63)
- The Specious Art of Single-Cell Genomics (2021) (63)
- Single-cell analysis at the threshold (2016) (60)
- The Mathematics of Phylogenomics (2004) (60)
- Identification of transposable elements using multiple alignments of related genomes. (2005) (59)
- Optimization of air vehicles operations using mixed-integer linear programming (2007) (57)
- Multiple-sequence functional annotation and the generalized hidden Markov phylogeny (2004) (54)
- Parametric Alignment of Drosophila Genomes (2005) (53)
- Finding Convex Sets Among Points in the Plane (1998) (53)
- Accurate design of translational output by a neural network model of ribosome distribution (2017) (53)
- scvi-tools: a library for deep probabilistic analysis of single-cell omics data (2021) (52)
- Development of a Low Bias Method for Characterizing Viral Populations Using Next Generation Sequencing Technology (2010) (51)
- A diverse epigenetic landscape at human exons with implication for expression (2015) (47)
- On pebbling graphs (1995) (46)
- Foraging Adaptation and the Relationship Between Food-Web Complexity and Stability (2009) (44)
- Shannon: An Information-Optimal de Novo RNA-Seq Assembler (2016) (43)
- Combining statistical alignment and phylogenetic footprinting to detect regulatory elements (2008) (41)
- RNA structure characterization from chemical mapping experiments (2011) (41)
- The neighbor-net algorithm (2007) (41)
- Specific alignment of structured RNA: stochastic grammars and sequence annealing (2008) (40)
- On the optimality of the neighbor-joining algorithm (2007) (40)
- Swab-Seq: A high-throughput platform for massively scaled up SARS-CoV-2 testing (2020) (40)
- Phyloepigenomic comparison of great apes reveals a correlation between somatic and germline methylation states. (2011) (39)
- RNA Velocity: Molecular Kinetics from Single-Cell RNA-Seq. (2018) (39)
- Protein velocity and acceleration from single-cell multiomics experiments (2020) (39)
- The NIH BD2K center for big data in translational genomics (2015) (36)
- Beyond pairwise distances: neighbor-joining with phylogenetic diversity estimates. (2006) (35)
- Accurate identification of novel human genes through simultaneous gene prediction in human, mouse, and rat. (2004) (34)
- Massively scaled-up testing for SARS-CoV-2 RNA via next-generation sequencing of pooled and barcoded nasal and saliva samples (2021) (34)
- Identification of evolutionary hotspots in the rodent genomes. (2004) (34)
- Isoform cell-type specificity in the mouse primary motor cortex (2020) (33)
- Rational experiment design for sequencing-based RNA structure mapping (2014) (32)
- Principles of open source bioinstrumentation applied to the poseidon syringe pump system (2019) (31)
- Fragment assignment in the cloud with eXpress-D (2013) (31)
- Alignment Metric Accuracy (2005) (30)
- RNA velocity unraveled (2022) (29)
- Highly Multiplexed Single-Cell RNA-seq for Defining Cell Population and Transcriptional Spaces (2018) (28)
- Forcing numbers of stop signs (2003) (28)
- Updating RNA-Seq analyses after re-annotation (2013) (27)
- Algebraic Statistics for Computational Biology: References (2005) (26)
- Applications of generalized pair hidden Markov models to alignment and gene finding problems. (2002) (26)
- From first base: the sequence of the tip of the X chromosome of Drosophila melanogaster, a comparison of two sequencing strategies. (2001) (26)
- Fusion detection and quantification by pseudoalignment (2017) (26)
- Estimating intrinsic and extrinsic noise from single-cell gene expression measurements (2016) (25)
- RNA-Seq and find: entering the RNA deep field (2011) (24)
- Toward the Human Genotope (2007) (23)
- Combinatorial Approaches and Conjectures for 2-Divisibility Problems Concerning Domino Tilings of Polyominoes (1997) (23)
- Visualization of multiple genome annotations and alignments with the K-BROWSER. (2004) (23)
- Subtree power analysis and species selection for comparative genomics (2005) (22)
- Expression reflects population structure (2018) (21)
- Combinatorics of least-squares trees (2008) (20)
- Whole-animal multiplexed single-cell RNA-seq reveals transcriptional shifts across Clytia medusa cell types (2021) (20)
- Picking alignments from (steiner) trees (2002) (19)
- A dictionary based approach for gene annotation (1999) (19)
- Decrease in ACE2 mRNA expression in aged mouse lung (2020) (19)
- Odd-paired is a pioneer-like factor that coordinates with Zelda to control gene expression in embryos (2020) (19)
- Geometry of rank tests (2006) (18)
- Markedly heterogeneous COVID-19 testing plans among US colleges and universities (2020) (18)
- Interpreting the unculturable majority (2007) (18)
- Whole-genome alignments and polytopes for comparative genomics (2006) (18)
- Barcode identification for single cell genomics (2017) (17)
- Quantifying the tradeoff between sequencing depth and cell number in single-cell RNA-seq (2019) (16)
- Keep Me Around: Intron Retention Detection and Analysis (2015) (16)
- The Lair: a resource for exploratory analysis of published RNA-Seq data (2016) (16)
- Multiple organism gene finding by collapsed gibbs sampling (2004) (16)
- Interpretable and tractable models of transcriptional noise for the rational design of single-molecule quantification experiments (2021) (15)
- Pregnancy-Induced Changes in Systemic Gene Expression among Healthy Women and Women with Rheumatoid Arthritis (2015) (14)
- SLAM web server for comparative gene finding and alignment (2003) (14)
- Special function methods for bursty models of transcription. (2020) (13)
- The computational challenges of applying comparative-based computational methods to whole genomes (2002) (13)
- The Cyclohedron Test for Finding Periodic Genes in Time Course Expression Studies (2007) (13)
- Optimal paths for avoiding a radiating source (2001) (13)
- Identification of transcriptional signatures for cell types from single-cell RNA-Seq (2018) (13)
- Transcriptomic response of Drosophila melanogaster pupae developed in hypergravity. (2016) (13)
- Phylogenetic Profiling of Insertions and Deletions in Vertebrate Genomes (2006) (13)
- Modeling bursty transcription and splicing with the chemical master equation. (2022) (12)
- Depth normalization for single-cell genomics count data (2022) (12)
- Compositional Data Analysis is necessary for simulating and analyzing RNA-Seq data (2019) (12)
- Association Mapping from Sequencing Reads Using K-mers (2017) (12)
- Coverage statistics for sequence census methods (2010) (12)
- MetMap Enables Genome-Scale Methyltyping for Determining Methylation States in Populations (2010) (12)
- PROBer Provides a General Toolkit for Analyzing Sequencing-Based Toeprinting Assays. (2017) (12)
- Normalization of single-cell RNA-seq counts by log(x+1)* or log(1+x)* (2020) (12)
- Intrinsic and extrinsic noise are distinguishable in a synthesis – export – degradation model of mRNA production (2020) (11)
- A direct comparison of genome alignment and transcriptome pseudoalignment (2018) (11)
- A dictionary-based approach for gene annotation. (1999) (11)
- Whole Animal Multiplexed Single-Cell RNA-Seq Reveals Plasticity of Clytia Medusa Cell Types (2021) (10)
- Large Multiple Organism Gene Finding by Collapsed Gibbs Sampling (2005) (10)
- Posterior decoding methods for optimization and accuracy control of multiple alignments (2007) (10)
- Length biases in single-cell RNA sequencing of pre-mRNA (2021) (10)
- A closer look at RNA editing (2012) (10)
- RefShannon: A genome-guided transcriptome assembler using sparse flow decomposition (2020) (9)
- Domino tiling, gene recognition, and mice (1999) (9)
- Metadata retrieval from sequence databases with ffq (2022) (8)
- Reliable and accurate diagnostics from highly multiplexed sequencing assays (2020) (8)
- Small Trees and Generalized Neighbor-Joining (2005) (8)
- N ov 2 00 3 MAVID : Constrained ancestral alignment of multiple sequences (2004) (8)
- Recent Developments in Computational Gene Recognition (1998) (7)
- Pregnancy-induced gene expression changes in vivo among women with rheumatoid arthritis: a pilot study (2017) (7)
- Affine and Projective Tree Metric Theorems (2011) (7)
- comparative sequence-based discovery of functional transcription factor binding sites (2002) (7)
- The ENCODE (ENCyclopedia Of DNA Elements) Project The ENCODE Project Consortium (2004) (6)
- Light Traps (1996) (6)
- Strategies and tools for whole genome alignments - eScholarship (2002) (6)
- Human Intestinal Tissue with Adult Stem Cell Properties Derived from Pluripotent Stem Cells (2014) (6)
- An introduction to reconstructing ancestral genomes (2006) (6)
- Monod : mechanistic analysis of single-cell RNA sequencing count data (6)
- Analytic solution of chemical master equations involving gene switching. I: Representation theory and diagrammatic approach to exact solution (2021) (6)
- Quantifying uniformity of mapped reads (2011) (6)
- Constructing Status Injective Graphs (1997) (6)
- Normalization of single-cell RNA-seq counts by log(x + 1)† or log(1 + x)† (2021) (5)
- Zika infection of neural progenitor cells perturbs transcription in neurodevelopmental pathways (2016) (5)
- Algebraic Statistics for Computational Biology: Statistics (2005) (5)
- Fast and accurate diagnostics from highly multiplexed sequencing assays (2020) (5)
- Efficient querying of genomic reference databases with gget (2022) (5)
- Design principles for open source bioinstrumentation: the poseidon syringe pump system as an example (2019) (5)
- RNA velocity and protein acceleration from single-cell multiomics experiments (2019) (5)
- Benchmarking of lightweight-mapping based single-cell RNA-seq pre-processing (2021) (5)
- Structural Variation among Wild and Industrial Strains of Penicillium chrysogenum (2014) (5)
- Tracing the Most Parsimonious Indel History (2011) (4)
- Odd-paired is a late-acting pioneer factor coordinating with Zelda to broadly regulate gene expression in early embryos (2019) (4)
- Controlling for conservation in genome-wide DNA methylation studies (2015) (4)
- Neighbor joining with phylogenetic diversity estimates (2005) (4)
- Column subset selection for single-cell RNA-Seq clustering (2017) (4)
- Spectral neural approximations for models of transcriptional dynamics (2022) (4)
- Determining Coding CpG Islands by Identifying Regions Significant for Pattern Statistics on Markov Chains (2011) (4)
- Fast Statistical Alignment : Text S 1 (2009) (4)
- Patterns of gene duplication and intron loss in the ENCODE regions suggest a confounding factor. (2007) (4)
- Transient and delay chemical master equations (2022) (4)
- Pair hidden Markov models (2005) (4)
- SWALO: scaffolding with assembly likelihood optimization (2016) (4)
- Neighbor Joining with Subtree Weights (2004) (4)
- BUTTERFLY: addressing the pooled amplification paradox with unique molecular identifiers in single-cell RNA-seq (2021) (3)
- A Dynamic Alternative Splicing Program Regulates Gene Expression In A Differentiation Stage-Specific Manner During Terminal Erythropoiesis (2013) (3)
- Low-cost, scalable, and automated fluid sampling for fluidics applications (2021) (3)
- A machine-readable specification for genomics assays (2023) (3)
- An Interesting Result about Subset Sums (1993) (3)
- Analytical solutions of the chemical master equation with bursty production and isomerization reactions (2021) (3)
- Accurate quantification of single-nucleus and single-cell RNA-seq transcripts (2022) (3)
- Erratum: Human intestinal tissue with adult stem cell properties derived from pluripotent stem cells (Stem Cell Reports (2014) 2 (838-852)) (2014) (3)
- Needed for completion of the human genome: hypothesis driven experiments and biologically realistic mathematical models (2004) (3)
- Subtree power analysis finds optimal species for comparative genomics (2004) (2)
- Algebraic Statistics for Computational Biology: Computation (2005) (2)
- Prober: A general toolkit for analyzing sequencing-based ‘toeprinting’ assays (2016) (2)
- Mechanistic modeling with a variational autoencoder for multimodal single-cell RNA sequencing data (2023) (2)
- Efficient pre-processing of Single-cell ATAC-seq data (2021) (2)
- The geometry of statistical models for biological sequences (2003) (2)
- BUTTERFLY: addressing the pooled amplification paradox with unique molecular identifiers in single-cell RNA-seq (2021) (2)
- Identifying RNA contacts from SHAPE-MaP by partial correlation analysis (2014) (2)
- Factor analysis for survival time prediction with informative censoring and diverse covariates (2019) (2)
- Comment on "Evidence of Abundant and Purifying Selection in Humans for Recently Acquired Regulatory Functions" (2012) (2)
- Pseudoalignment facilitates assignment of error-prone Ultima Genomics reads (2022) (2)
- Addressing the pooled amplification paradox with unique molecular identifiers in single-cell RNA-seq (2020) (2)
- Direct simulation of a stochastically driven multi-step birth-death process (2021) (1)
- Publisher Correction: Museum of spatial transcriptomics (2022) (1)
- Anat Caspi and Lior Pachter of related genomes Identification of transposable elements using multiple alignments (2006) (1)
- Selecting universities: personal preference and rankings (2008) (1)
- GENOME-WIDE ANALYSIS AND COMPARATIVE GENOMICS (2001) (1)
- Efficient querying of genomic databases for single-cell RNA-seq with gget (1)
- Flexible parsing and preprocessing of technical sequences with splitcode (2023) (1)
- Towards the Human Genotope (2006) (1)
- Fragment assignment in the cloud with (2013) (1)
- A latent variable model for survival time prediction with censoring and diverse covariates (2017) (1)
- log(x+1)* and log(1+x)* (2020) (1)
- Computational analyses of eukaryotic gene evolution (2006) (1)
- Algebraic Statistics for Computational Biology: Algebra (2005) (1)
- VISTA: computational toolsfor comparative genomics (2004) (1)
- An Erythroid-Specific Intron Retention Program Regulates Expression of Selected Genes during Terminal Erythropoiesis (2014) (0)
- Distinguishing biophysical stochasticity from technical noise in single-cell RNA sequencing using Monod (2023) (0)
- Three-Way Species Comparisons Active Conservation of Noncoding Sequences Revealed by (2007) (0)
- Algebraic Statistics for Computational Biology: Introduction to the four themes (2005) (0)
- The BUS Format for Single-Cell RNA-Seq Processing and Analysis. (2019) (0)
- pachterlab/CWGFLHGCCHAP_2021: Release for First Manuscript Draft (2021) (0)
- Quantifying orthogonal barcodes for sequence census assays (2022) (0)
- Exploring the Genetic Basis of Variation in Gene Predictions with a Synthetic Association Study (2010) (0)
- The Erythroid Intron Retention Program Encompasses Developmentally Stable and Dynamic Networks and Regulates Diverse Gene Classes (2015) (0)
- Transcript Abundance Estimation and the Laminar Packing Problem (2019) (0)
- ERRATUM TO “ON THE EDGE l∞ RADIUS OF SAITOU AND NEI’S METHOD FOR PHYLOGENETIC RECONSTRUCTION” [THEORET (2007) (0)
- Fragment assignment in the cloud with eXpress-D (2013) (0)
- Mathematical & Computational Biology Seminar (2009) (0)
- Cell-specific occupancy dynamics between the pioneer-like factor Opa/ZIC and Ocelliless/OTX regulate early head development in embryos (2022) (0)
- Controlling for conservation in genome-wide DNA methylation studies (2015) (0)
- Longitudinal Changes in Gene Expression Associated with Disease Activity during Pregnancy and Post-Partum Among Women with Rheumatoid Arthritis (2017) (0)
- A novel approach to comparative RNA-Seq does not support a conserved set of genes underlying animal regeneration (2021) (0)
- AFRL-VA-WP-TP-2004-308 UAV TASK ASSIGNMENT WITH TIMING CONSTRAINTS VIA MIXED-INTEGER LINEAR PROGRAMMING (0)
- Accurate design of translational output by a neural network model of ribosome distribution (2018) (0)
- Association Mapping from 1 Sequencing Reads using k-mers 2 (2018) (0)
- Analysis of Length Biases in Single-Cell RNA Sequencing of Unspliced mRNA by Markov Modeling (2021) (0)
- CGAL: computing genome assembly likelihoods (2013) (0)
- Assembly Instructions for colosseum v1 (2021) (0)
- Algebraic Statistics in non-parametric Information Geometry (2008) (0)
- Gene-level differential analysis at transcript-level resolution (2018) (0)
- The Split Senate (2021) (0)
- Ja n 20 04 Parametric Inference for Biological Sequence Analysis (0)
- 239 Discrete Mathematics for the Life Sciences (2015) (0)
- A discriminative learning approach to differential expression analysis for single-cell RNA-seq (2019) (0)
- Human tissue with adult stem cell properties derived from pluripotent stem cells. (2014) (0)
- Barcode identification for single cell genomics (2019) (0)
- D ec 2 00 6 Towards the Human Genotope (2018) (0)
- LOCAS : A new low coverage assembler for short reads (2009) (0)
- Algebraic Statistics for Computational Biology: Preface (2005) (0)
- 1 Strategies and Tools for Whole Genome Alignments (2002) (0)
- Combinatorics of viterbi sequences (2005) (0)
- Comment on Feizi et al . , Nat . Biotech . 31 ( 2013 ) by Nicolas Bray and Lior Pachter (2013) (0)
- Fast and accurate single-cell RNA-seq analysis by clustering of transcript-compatibility counts (2016) (0)
- From the Homework : Counting Laminar Families (2008) (0)
- Method for combining multiple genomic and clinical datatypes to predict recurrence grade in gliomas (2015) (0)
- Highly multiplexed single-cell RNA-seq by DNA oligonucleotide tagging of cellular proteins (2019) (0)
- Deterministic column subset selection for single-cell RNA-Seq (2019) (0)
- Algebraic Statistics for Computational Biology: Guide to the chapters (2005) (0)
- Publisher Correction: Museum of spatial transcriptomics (2022) (0)
- SHADOWER : A generalized hidden Markov phylogeny for multiple-sequence functional annotation (2004) (0)
- Learning the Dynamics of Bursty Transcription and Splicing using Ultra-Fast Parameter Inference and New Analytical Solutions of the Chemical Master Equation (2021) (0)
- Supplementary Note 1: Details of the simulations (2017) (0)
- Protein velocity and acceleration from single-cell multiomics experiments (2020) (0)
- Prober: Ageneraltoolkitforanalyzingsequencing-based 'toeprinting'assays (2016) (0)
- Assessing the multimodal tradeoff (2023) (0)
- Gene Regulation - Session Introduction (2003) (0)
- Global Alignment System for Large Genomic Sequencing (2002) (0)
- Algorithms and infrastructure for accurate pre-processing and analysis of single-cell RNA-seq (2019) (0)
- Bayesian Networks in the Study of Genome-wide DNA Methylation (2014) (0)
- Annotation-agnostic discovery of associations between novel gene isoforms and phenotypes (2022) (0)
- Assembly Instructions for colosseum v2 (2021) (0)
- Abundance of Alternative Splicing Events and Differentiation Stage-Specific Changes in Splicing Suggest A Major Role in Regulation of Gene Expression During Late Erythropoiesis (2012) (0)
- A decade of molecular cell atlases (2022) (0)
- Sequence analysis Quantifying uniformity of mapped reads (2012) (0)
- Algebraic Statistics for Computational Biology: Studies on the four themes (2005) (0)
- Genome-Wide Analysis and Comparative Genomics - Session Introduction (2002) (0)
- BIOINFORMATICS ORIGINAL PAPER (2009) (0)
- The Lair: a resource for exploratory analysis of published RNA-Seq data (2016) (0)
- Mapping scRNA-seq data onto cell type taxonomies (2018) (0)
- Transcriptome Analysis in Women with Rheumatoid Arthritis Who Improve or Worsen during Pregnancy (2017) (0)
- The telegraph process is not a subordinator (2023) (0)
- Affine and Projective Tree Metric Theorems (2012) (0)
- AMAP-Fast and accurate multiple alignment using posterior decoding and sequence annealing (2007) (0)
- Combinatorics of Least-Squares Trees Author ( s ) : (2017) (0)
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