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Author: Qin Ma

Rankings

  • All-time downloads: 20,043 (rank: 9,869 )
  • Categories:
    • bioinformatics: 14,720 (rank: 474 )
    • cancer biology: 351 (rank: 25,504 (tie) )
    • evolutionary biology: 552 (rank: 13,434 (tie) )
    • genetics: 711 (rank: 21,281 (tie) )
    • genomics: 416 (rank: 40,204 (tie) )
    • microbiology: 1,181 (rank: 13,513 (tie) )
    • molecular biology: 304 (rank: 20,462 (tie) )
    • neuroscience: 245 (rank: 71,140 (tie) )
    • plant biology: 1,123 (rank: 3,724 (tie) )
    • systems biology: 440 (rank: 9,870 (tie) )

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Preprints

Deep Transfer Learning of Drug Sensitivity by Integrating Bulk and Single-cell RNA-seq data

bioinformatics more details view paper

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Define and visualize pathological architectures of human tissues from spatially resolved transcriptomics using deep learning

bioinformatics more details view paper

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ViDGER: An R package for integrative interpretation of differential gene expression results of RNA-seq data

bioinformatics more details view paper
  • Downloaded 2,583 times
  • Download rankings, all-time:
    • Site-wide: 5,901
    • In bioinformatics: 625
  • Year to date:
    • Site-wide: 25,578
  • Since beginning of last month:
    • Site-wide: 36,741

scGNN: a novel graph neural network framework for single-cell RNA-Seq analyses

bioinformatics more details view paper
  • Downloaded 1,535 times
  • Download rankings, all-time:
    • Site-wide: 12,672
    • In bioinformatics: 1,464
  • Year to date:
    • Site-wide: 7,387
  • Since beginning of last month:
    • Site-wide: 43,929

Gene-centric intra- and inter-clade recombination in a context of Escherichia coli subpopulations

microbiology more details view paper
  • Downloaded 1,181 times
  • Download rankings, all-time:
    • Site-wide: 18,836
    • In microbiology: 1,081
  • Year to date:
    • Site-wide: 68,442
  • Since beginning of last month:
    • Site-wide: 81,490

IRIS-EDA: An integrated RNA-Seq interpretation system for gene expression data analysis

bioinformatics more details view paper
  • Downloaded 1,124 times
  • Download rankings, all-time:
    • Site-wide: 20,282
    • In bioinformatics: 2,343
  • Year to date:
    • Site-wide: 71,491
  • Since beginning of last month:
    • Site-wide: 78,451

A graph neural network model to estimate cell-wise metabolic flux using single cell RNA-seq data

bioinformatics more details view paper
  • Downloaded 999 times
  • Download rankings, all-time:
    • Site-wide: 24,062
    • In bioinformatics: 2,764
  • Year to date:
    • Site-wide: 4,839
  • Since beginning of last month:
    • Site-wide: 11,587

QUBIC2: A novel biclustering algorithm for large-scale bulk RNA-sequencing and single-cell RNA-sequencing data analysis

bioinformatics more details view paper
  • Downloaded 938 times
  • Download rankings, all-time:
    • Site-wide: 26,418
    • In bioinformatics: 3,014
  • Year to date:
    • Site-wide: 93,815
  • Since beginning of last month:
    • Site-wide: 79,821

Systematic Prediction of Regulatory Motifs from Human ChIP-Sequencing Data Based on a Deep Learning Framework

bioinformatics more details view paper
  • Downloaded 870 times
  • Download rankings, all-time:
    • Site-wide: 29,348
    • In bioinformatics: 3,310
  • Year to date:
    • Site-wide: 98,351
  • Since beginning of last month:
    • Site-wide: 82,231

GeneQC: A quality control tool for gene expression estimation based on RNA-sequencing reads mapping

bioinformatics more details view paper
  • Downloaded 733 times
  • Download rankings, all-time:
    • Site-wide: 37,263
    • In bioinformatics: 4,049
  • Year to date:
    • Site-wide: 108,673
  • Since beginning of last month:
    • Site-wide: 121,680

Identification of methylation and hydroxymethylation haplotype blocks as distal regulatory elements aids in deconvolution of heterogeneous brain tissues

genetics more details view paper
  • Downloaded 711 times
  • Download rankings, all-time:
    • Site-wide: 38,871
    • In genetics: 1,766
  • Year to date:
    • Site-wide: 98,812
  • Since beginning of last month:
    • Site-wide: 61,448

scREAD: A single-cell RNA-Seq database for Alzheimer's Disease

bioinformatics more details view paper
  • Downloaded 708 times
  • Download rankings, all-time:
    • Site-wide: 39,131
    • In bioinformatics: 4,211
  • Year to date:
    • Site-wide: 37,689
  • Since beginning of last month:
    • Site-wide: 57,539

LTMG: A novel statistical modeling of transcriptional expression states in single-cell RNA-Seq data

bioinformatics more details view paper
  • Downloaded 632 times
  • Download rankings, all-time:
    • Site-wide: 45,325
    • In bioinformatics: 4,735
  • Year to date:
    • Site-wide: 63,738
  • Since beginning of last month:
    • Site-wide: 60,582

Prediction of protein-protein interactions based on elastic net and deep forest

bioinformatics more details view paper
  • Downloaded 625 times
  • Download rankings, all-time:
    • Site-wide: 45,952
    • In bioinformatics: 4,800
  • Year to date:
    • Site-wide: 24,678
  • Since beginning of last month:
    • Site-wide: 25,746

Genetic load and mutational meltdown in cancer cell populations

evolutionary biology more details view paper
  • Downloaded 552 times
  • Download rankings, all-time:
    • Site-wide: 53,622
    • In evolutionary biology: 2,760
  • Year to date:
    • Site-wide: 91,785
  • Since beginning of last month:
    • Site-wide: 29,621

Rootstock effects on scion phenotypes in a 'Chambourcin' experimental vineyard

plant biology more details view paper
  • Downloaded 519 times
  • Download rankings, all-time:
    • Site-wide: 57,720
    • In plant biology: 1,393
  • Year to date:
    • Site-wide: 141,427
  • Since beginning of last month:
    • Site-wide: 140,645

A probabilistic model-based bi-clustering method for single-cell transcriptomic data analysis

bioinformatics more details view paper
  • Downloaded 471 times
  • Download rankings, all-time:
    • Site-wide: 64,288
    • In bioinformatics: 6,257
  • Year to date:
    • Site-wide: 146,764
  • Since beginning of last month:
    • Site-wide: 143,481

RECTA: Regulon Identification Based on Comparative Genomics and Transcriptomics Analysis

systems biology more details view paper
  • Downloaded 440 times
  • Download rankings, all-time:
    • Site-wide: 69,113
    • In systems biology: 1,613
  • Year to date:
    • Site-wide: 121,624
  • Since beginning of last month:
    • Site-wide: 133,441

Free-living human cells reconfigure their chromosomes in the evolution back to uni-cellularity

genomics more details view paper
  • Downloaded 416 times
  • Download rankings, all-time:
    • Site-wide: 73,147
    • In genomics: 4,993
  • Year to date:
    • Site-wide: 134,726
  • Since beginning of last month:
    • Site-wide: 135,842

Gene regulatory networks associated with lateral root and nodule development in soybean

plant biology more details view paper
  • Downloaded 383 times
  • Download rankings, all-time:
    • Site-wide: 79,012
    • In plant biology: 2,057
  • Year to date:
    • Site-wide: 76,748
  • Since beginning of last month:
    • Site-wide: 116,270

A Bayesian Multivariate Mixture Model for Spatial Transcriptomics Data

bioinformatics more details view paper
  • Downloaded 383 times
  • Download rankings, all-time:
    • Site-wide: 79,046
    • In bioinformatics: 7,253
  • Year to date:
    • Site-wide: 11,719
  • Since beginning of last month:
    • Site-wide: 3,382

Bi-clustering based biological and clinical characterization of colorectal cancer in complementary to CMS classification

bioinformatics more details view paper
  • Downloaded 358 times
  • Download rankings, all-time:
    • Site-wide: 83,766
    • In bioinformatics: 7,579
  • Year to date:
    • Site-wide: 117,032
  • Since beginning of last month:
    • Site-wide: 61,553

Inductive Inference of Gene Regulatory Network Using Supervised and Semi-supervised Graph Neural Networks

bioinformatics more details view paper
  • Downloaded 351 times
  • Download rankings, all-time:
    • Site-wide: 85,285
    • In bioinformatics: 7,661
  • Year to date:
    • Site-wide: 45,154
  • Since beginning of last month:
    • Site-wide: 40,591

Analysis of next- and third-generation RNA-Seq data reveals the structures of alternative transcription units in bacterial genomes

bioinformatics more details view paper
  • Downloaded 330 times
  • Download rankings, all-time:
    • Site-wide: 89,561
    • In bioinformatics: 7,962
  • Year to date:
    • Site-wide: 14,473
  • Since beginning of last month:
    • Site-wide: 43,186

FACT subunit SUPT16H associates with BRD4 and contributes to silencing of antiviral interferon signaling

molecular biology more details view paper
  • Downloaded 304 times
  • Download rankings, all-time:
    • Site-wide: 95,573
    • In molecular biology: 2,815
  • Year to date:
    • Site-wide: 16,225
  • Since beginning of last month:
    • Site-wide: 12,729

MiREDiBase: a manually curated database of validated and putative editing events in microRNAs

bioinformatics more details view paper
  • Downloaded 293 times
  • Download rankings, all-time:
    • Site-wide: 97,927
    • In bioinformatics: 8,456
  • Year to date:
    • Site-wide: 46,360
  • Since beginning of last month:
    • Site-wide: 144,960

rSeqTU — a machine-learning based R package for prediction of bacterial transcription units

bioinformatics more details view paper
  • Downloaded 289 times
  • Download rankings, all-time:
    • Site-wide: 98,733
    • In bioinformatics: 8,517
  • Year to date:
    • Site-wide: 147,793
  • Since beginning of last month:
    • Site-wide: 123,492

Assessing deep learning algorithms in cis-regulatory motif finding based on genomic sequencing data

bioinformatics more details view paper
  • Downloaded 287 times
  • Download rankings, all-time:
    • Site-wide: 99,334
    • In bioinformatics: 8,542
  • Year to date:
    • Site-wide: 49,479
  • Since beginning of last month:
    • Site-wide: 72,633

Prediction of Protein-Protein Interactions Based on L1-Regularized Logistic Regression and Gradient Tree Boosting

bioinformatics more details view paper
  • Downloaded 250 times
  • Download rankings, all-time:
    • Site-wide: 108,106
    • In bioinformatics: 9,092
  • Year to date:
    • Site-wide: 95,629
  • Since beginning of last month:
    • Site-wide: 39,263

Spatially resolved transcriptomics reveals unique gene signatures associated with human temporal cortical architecture and Alzheimer's pathology

neuroscience more details view paper
  • Downloaded 245 times
  • Download rankings, all-time:
    • Site-wide: 109,349
    • In neuroscience: 16,686
  • Year to date:
    • Site-wide: 21,816
  • Since beginning of last month:
    • Site-wide: 917

IRIS-FGM: an integrative single-cell RNA-Seq interpretation system for functional gene module analysis

bioinformatics more details view paper
  • Downloaded 226 times
  • Download rankings, all-time:
    • Site-wide: 113,961
    • In bioinformatics: 9,459
  • Year to date:
    • Site-wide: 57,454
  • Since beginning of last month:
    • Site-wide: 38,658

Root system influence on high dimensional leaf phenotypes over the grapevine growing season

plant biology more details view paper
  • Downloaded 221 times
  • Download rankings, all-time:
    • Site-wide: 115,222
    • In plant biology: 3,160
  • Year to date:
    • Site-wide: 60,560
  • Since beginning of last month:
    • Site-wide: 28,539

Causal inference for the effect of environmental chemicals on chronic kidney disease

bioinformatics more details view paper
  • Downloaded 211 times
  • Download rankings, all-time:
    • Site-wide: 117,787
    • In bioinformatics: 9,645
  • Year to date:
    • Site-wide: 115,700
  • Since beginning of last month:
    • Site-wide: 115,523

MpsLDA-ProSVM: predicting multi-label protein subcellular localization by wMLDAe dimensionality reduction and ProSVM classifier

bioinformatics more details view paper
  • Downloaded 206 times
  • Download rankings, all-time:
    • Site-wide: 118,903
    • In bioinformatics: 9,713
  • Year to date:
    • Site-wide: 70,967
  • Since beginning of last month:
    • Site-wide: 144,625

Inhibition of polo-like kinase 1 (PLK1) facilitates reactivation of gamma-herpesviruses in B-cell lymphomas and their elimination

cancer biology more details view paper
  • Downloaded 195 times
  • Download rankings, all-time:
    • Site-wide: 121,694
    • In cancer biology: 3,698
  • Year to date:
    • Site-wide: 44,052
  • Since beginning of last month:
    • Site-wide: 32,424

DMLDA-LocLIFT: Identification of multi-label protein subcellular localization using DMLDA dimensionality reduction and LIFT classifier

bioinformatics more details view paper
  • Downloaded 171 times
  • Download rankings, all-time:
    • Site-wide: 127,404
    • In bioinformatics: 10,191
  • Year to date:
    • Site-wide: 120,076
  • Since beginning of last month:
    • Site-wide: 116,320

A concurrent canonical and modified miRNAome pan-cancer study on TCGA and TARGET cohorts leads to an enhanced resolution in cancer

cancer biology more details view paper
  • Downloaded 156 times
  • Download rankings, all-time:
    • Site-wide: 130,659
    • In cancer biology: 4,006
  • Year to date:
    • Site-wide: 37,928
  • Since beginning of last month:
    • Site-wide: 42,895

StackRAM: a cross-species method for identifying RNA N6-methyladenosine sites based on stacked ensemble

bioinformatics more details view paper
  • Downloaded 147 times
  • Download rankings, all-time:
    • Site-wide: 132,715
    • In bioinformatics: 10,453
  • Year to date:
    • Site-wide: 144,086
  • Since beginning of last month:
    • Site-wide: 129,492

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