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Author: Ruedi Aebersold

Rankings

  • All-time downloads: 62,063 (rank: 4,013 )
  • Categories:
    • biochemistry: 10,300 (rank: 317 )
    • bioinformatics: 5,241 (rank: 3,560 (tie) )
    • biophysics: 2,955 (rank: 2,435 (tie) )
    • cancer biology: 2,698 (rank: 4,045 (tie) )
    • cell biology: 1,860 (rank: 6,973 (tie) )
    • evolutionary biology: 512 (rank: 20,601 (tie) )
    • microbiology: 643 (rank: 38,966 (tie) )
    • neuroscience: 1,027 (rank: 39,868 (tie) )
    • oncology: 2,361 (rank: 261 (tie) )
    • pediatrics: 465 (rank: 2,373 (tie) )
    • physiology: 968 (rank: 2,372 (tie) )
    • plant biology: 635 (rank: 13,191 (tie) )
    • systems biology: 31,458 (rank: 132 )

Downloads per author, site-wide

Preprints

Parallel accumulation – serial fragmentation combined with data-independent acquisition (diaPASEF): Bottom-up proteomics with near optimal ion usage

systems biology more details view paper
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    • Site-wide: 3,514
    • In systems biology: 42
  • Year to date:
    • Site-wide: 8,840
  • Since beginning of last month:
    • Site-wide: 26,340

Automated SWATH Data Analysis Using Targeted Extraction of Ion Chromatograms

bioinformatics more details view paper
  • Downloaded 3,875 times
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    • Site-wide: 5,027
    • In bioinformatics: 444
  • Year to date:
    • Site-wide: 178,844
  • Since beginning of last month:
    • Site-wide: 93,713

Genomic, Proteomic and Phenotypic Heterogeneity in HeLa Cells across Laboratories: Implications for Reproducibility of Research Results

systems biology more details view paper
  • Downloaded 3,220 times
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    • Site-wide: 6,628
    • In systems biology: 98
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    • Site-wide: 22,710
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    • Site-wide: 59,687

Multi-Omic Profiling of the Liver Across Diets and Age in a Diverse Mouse Population

systems biology more details view paper
  • Downloaded 3,005 times
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    • Site-wide: 7,294
    • In systems biology: 113
  • Year to date:
    • Site-wide: 1,453
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    • Site-wide: 13,196

Principles of gene regulation quantitatively connect DNA to RNA and proteins in bacteria

systems biology more details view paper
  • Downloaded 2,516 times
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    • Site-wide: 9,476
    • In systems biology: 164
  • Year to date:
    • Site-wide: 1,183
  • Since beginning of last month:
    • Site-wide: 355

Protein Classifier for Thyroid Nodules Learned from Rapidly Acquired Proteotypes

oncology more details view paper
  • Downloaded 2,381 times
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    • Site-wide: 10,338
    • In oncology: 11
  • Year to date:
    • Site-wide: 38,948
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    • Site-wide: 34,531

JARID2 and AEBP2 regulate PRC2 activity in the presence of H2A ubiquitination or other histone modifications

biophysics more details view paper
  • Downloaded 2,373 times
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    • Site-wide: 10,383
    • In biophysics: 206
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    • Site-wide: 33,985
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    • Site-wide: 45,815

Rapid proteotyping reveals cancer biology and drug response determinants in the NCI-60 cells

systems biology more details view paper
  • Downloaded 2,030 times
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    • Site-wide: 13,157
    • In systems biology: 212
  • Year to date:
    • Site-wide: 37,417
  • Since beginning of last month:
    • Site-wide: 94,067

Insights into autophagosome biogenesis from structural and biochemical analyses of the ATG2A-WIPI4 complex

biochemistry more details view paper
  • Downloaded 1,851 times
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    • Site-wide: 15,165
    • In biochemistry: 314
  • Year to date:
    • Site-wide: 174,558
  • Since beginning of last month:
    • Site-wide: 93,739

Cross-linking/Mass Spectrometry: A Community-Wide, Comparative Study Towards Establishing Best Practice Guidelines

biochemistry more details view paper
  • Downloaded 1,694 times
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    • Site-wide: 17,386
    • In biochemistry: 380
  • Year to date:
    • Site-wide: 58,357
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    • Site-wide: 89,632

High-throughput proteomic analysis of FFPE tissue samples facilitates tumor stratification

biochemistry more details view paper
  • Downloaded 1,592 times
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    • Site-wide: 19,194
    • In biochemistry: 409
  • Year to date:
    • Site-wide: 178,959
  • Since beginning of last month:
    • Site-wide: 144,208

A high density map for navigating the human Polycomb complexome

systems biology more details view paper
  • Downloaded 1,389 times
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    • Site-wide: 23,896
    • In systems biology: 421
  • Year to date:
    • Site-wide: 59,897
  • Since beginning of last month:
    • Site-wide: 43,593

Integration of transcriptome, proteome and phosphoproteome data elucidates the genetic control of molecular networks

systems biology more details view paper
  • Downloaded 1,384 times
  • Download rankings, all-time:
    • Site-wide: 24,044
    • In systems biology: 428
  • Year to date:
    • Site-wide: 37,183
  • Since beginning of last month:
    • Site-wide: 75,056

Multi-laboratory assessment of reproducibility, qualitative and quantitative performance of SWATH-mass spectrometry

biochemistry more details view paper
  • Downloaded 1,336 times
  • Download rankings, all-time:
    • Site-wide: 25,461
    • In biochemistry: 541
  • Year to date:
    • Site-wide: 163,709
  • Since beginning of last month:
    • Site-wide: 210,409

SECAT: Quantifying differential protein-protein interaction states by network-centric analysis

systems biology more details view paper
  • Downloaded 1,128 times
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    • Site-wide: 33,253
    • In systems biology: 608
  • Year to date:
    • Site-wide: 60,969
  • Since beginning of last month:
    • Site-wide: 213,017

Convergent network effects along the axis of gene expression during prostate cancer progression

systems biology more details view paper
  • Downloaded 1,065 times
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    • Site-wide: 36,257
    • In systems biology: 668
  • Year to date:
    • Site-wide: 155,043
  • Since beginning of last month:
    • Site-wide: 99,727

System-wide quantitative proteomics of the metabolic syndrome in mice: genotypic and dietary effects

systems biology more details view paper
  • Downloaded 1,040 times
  • Download rankings, all-time:
    • Site-wide: 37,617
    • In systems biology: 699
  • Year to date:
    • Site-wide: 107,070
  • Since beginning of last month:
    • Site-wide: 209,511

Complex-centric proteome profiling by SEC-SWATH-MS

systems biology more details view paper
  • Downloaded 1,028 times
  • Download rankings, all-time:
    • Site-wide: 38,282
    • In systems biology: 712
  • Year to date:
    • Site-wide: 166,200
  • Since beginning of last month:
    • Site-wide: 142,962

Accelerated Protein Biomarker Discovery from FFPE tissue samples using Single-shot, Short Gradient Microflow SWATH MS

cancer biology more details view paper
  • Downloaded 1,022 times
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    • Site-wide: 38,634
    • In cancer biology: 1,095
  • Year to date:
    • Site-wide: 31,342
  • Since beginning of last month:
    • Site-wide: 60,061

PGC1a and Exercise Adaptations in Zebrafish

physiology more details view paper
  • Downloaded 980 times
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    • Site-wide: 41,231
    • In physiology: 182
  • Year to date:
    • Site-wide: 79,845
  • Since beginning of last month:
    • Site-wide: 26,226

Ultra-sensitive proteome profiling of FACS-isolated cell populations by data-independent acquisition-MS: Application to human hematopoietic stem and progenitor cells

systems biology more details view paper
  • Downloaded 965 times
  • Download rankings, all-time:
    • Site-wide: 42,238
    • In systems biology: 814
  • Year to date:
    • Site-wide: 145,719
  • Since beginning of last month:
    • Site-wide: 118,586

DPHL: A pan-human protein mass spectrometry library for robust biomarker discovery using Data-Independent Acquisition and Parallel Reaction Monitoring

bioinformatics more details view paper
  • Downloaded 963 times
  • Download rankings, all-time:
    • Site-wide: 42,366
    • In bioinformatics: 4,505
  • Year to date:
    • Site-wide: 62,673
  • Since beginning of last month:
    • Site-wide: 160,754

Molecular architecture of the human tRNA ligase complex

biochemistry more details view paper
  • Downloaded 937 times
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    • Site-wide: 44,240
    • In biochemistry: 1,093
  • Year to date:
    • Site-wide: 118,839
  • Since beginning of last month:
    • Site-wide: 112,228

Comparative ’omics analyses differentiate Mycobacterium tuberculosis and Mycobacterium bovis and reveal distinct macrophage responses to infection with the human and bovine tubercle bacilli

systems biology more details view paper
  • Downloaded 913 times
  • Download rankings, all-time:
    • Site-wide: 46,003
    • In systems biology: 885
  • Year to date:
    • Site-wide: 179,557
  • Since beginning of last month:
    • Site-wide: 94,056

Identification of protein abundance changes in biopsy-level hepatocellular carcinoma tissues using PCT-SWATH

systems biology more details view paper
  • Downloaded 821 times
  • Download rankings, all-time:
    • Site-wide: 54,070
    • In systems biology: 1,065
  • Year to date:
    • Site-wide: 106,868
  • Since beginning of last month:
    • Site-wide: 204,446

Rapid profiling of protein complex re-organization in perturbed systems

systems biology more details view paper
  • Downloaded 799 times
  • Download rankings, all-time:
    • Site-wide: 56,351
    • In systems biology: 1,141
  • Year to date:
    • Site-wide: 29,805
  • Since beginning of last month:
    • Site-wide: 87,010

Systematic protein complex profiling and differential analysis from co-fractionation mass spectrometry data

systems biology more details view paper
  • Downloaded 778 times
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    • Site-wide: 58,548
    • In systems biology: 1,172
  • Year to date:
    • Site-wide: 88,861
  • Since beginning of last month:
    • Site-wide: 77,633

Meiotic Nuclear Pore Complex Remodeling Provides Key Insights into Nuclear Basket Organization

cell biology more details view paper
  • Downloaded 743 times
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    • Site-wide: 62,675
    • In cell biology: 2,740
  • Year to date:
    • Site-wide: 40,617
  • Since beginning of last month:
    • Site-wide: 17,818

Network analysis identifies regulators of lineage-specific phenotypes in Mycobacterium tuberculosis

systems biology more details view paper
  • Downloaded 734 times
  • Download rankings, all-time:
    • Site-wide: 63,941
    • In systems biology: 1,286
  • Year to date:
    • Site-wide: 52,404
  • Since beginning of last month:
    • Site-wide: 212,295

A global screen for assembly state changes of the mitotic proteome by SEC-SWATH-MS

systems biology more details view paper
  • Downloaded 713 times
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    • Site-wide: 66,546
    • In systems biology: 1,320
  • Year to date:
    • Site-wide: 177,426
  • Since beginning of last month:
    • Site-wide: 154,832

Mitochondrial translation and dynamics synergistically extend lifespan in C. elegans through HLH-30

cell biology more details view paper
  • Downloaded 709 times
  • Download rankings, all-time:
    • Site-wide: 67,079
    • In cell biology: 2,907
  • Year to date:
    • Site-wide: 185,562
  • Since beginning of last month:
    • Site-wide: 187,916

The polyQ expansion modulates the configuration and phosphorylation of huntingtin

neuroscience more details view paper
  • Downloaded 696 times
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    • Site-wide: 68,930
    • In neuroscience: 9,801
  • Year to date:
    • Site-wide: None
  • Since beginning of last month:
    • Site-wide: 154,984

Multi-region proteome analysis quantifies spatial heterogeneity of prostate tissue biomarkers

systems biology more details view paper
  • Downloaded 686 times
  • Download rankings, all-time:
    • Site-wide: 70,255
    • In systems biology: 1,389
  • Year to date:
    • Site-wide: 197,568
  • Since beginning of last month:
    • Site-wide: 210,042

Structural and kinetic analysis of the COP9-Signalosome activation and the cullin-RING ubiquitin ligase deneddylation cycle

biochemistry more details view paper
  • Downloaded 684 times
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    • Site-wide: 70,575
    • In biochemistry: 1,891
  • Year to date:
    • Site-wide: 144,925
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    • Site-wide: 204,673

Resource misallocation as a mediator of fitness costs in antibiotic resistance.

microbiology more details view paper
  • Downloaded 646 times
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    • Site-wide: 76,305
    • In microbiology: 4,674
  • Year to date:
    • Site-wide: 194,757
  • Since beginning of last month:
    • Site-wide: 178,342

Arabidopsis Proteome and the Mass Spectral Assay Library

plant biology more details view paper
  • Downloaded 637 times
  • Download rankings, all-time:
    • Site-wide: 77,661
    • In plant biology: 1,866
  • Year to date:
    • Site-wide: 196,506
  • Since beginning of last month:
    • Site-wide: 182,438

Systematic detection of functional proteoform groups from bottom-up proteomic datasets

systems biology more details view paper
  • Downloaded 629 times
  • Download rankings, all-time:
    • Site-wide: 78,977
    • In systems biology: 1,587
  • Year to date:
    • Site-wide: 201,874
  • Since beginning of last month:
    • Site-wide: 170,085

MLL1 minimal catalytic complex is a dynamic conformational ensemble susceptible to pharmacological allosteric disruption

biophysics more details view paper
  • Downloaded 604 times
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    • Site-wide: 83,110
    • In biophysics: 2,948
  • Year to date:
    • Site-wide: 107,176
  • Since beginning of last month:
    • Site-wide: 147,660

Integrative structure investigation on the architecture of human Importin4_histone H3/H4_Asf1a complex and its histone H3 tail binding

biochemistry more details view paper
  • Downloaded 591 times
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    • Site-wide: 85,439
    • In biochemistry: 2,369
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    • Site-wide: 163,668
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    • Site-wide: 76,116

Two parallel pathways implement robust propionate catabolism and detoxification in mycobacteria

systems biology more details view paper
  • Downloaded 576 times
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    • Site-wide: 88,272
    • In systems biology: 1,819
  • Year to date:
    • Site-wide: 82,470
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    • Site-wide: 143,204

Breast cancer classification based on proteotypes obtained by SWATH mass spectrometry

cancer biology more details view paper
  • Downloaded 566 times
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    • Site-wide: 90,266
    • In cancer biology: 2,690
  • Year to date:
    • Site-wide: 144,108
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    • Site-wide: 145,434

The GTPase Nog1 couples polypeptide exit tunnel quality control with ribosomal stalk assembly

biochemistry more details view paper
  • Downloaded 536 times
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    • Site-wide: 96,367
    • In biochemistry: 2,711
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    • Site-wide: 109,506
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    • Site-wide: 144,970

Integrated multi-omics reveals anaplerotic insufficiency in methylmalonyl-CoA mutase deficiency

pediatrics more details view paper
  • Downloaded 521 times
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    • Site-wide: 99,598
    • In pediatrics: 208
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    • Site-wide: 5,444
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    • Site-wide: 14,113

SWATH-MS co-expression profiles reveal paralogue interference in protein complex evolution

evolutionary biology more details view paper
  • Downloaded 520 times
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    • Site-wide: 99,819
    • In evolutionary biology: 4,602
  • Year to date:
    • Site-wide: 79,751
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    • Site-wide: 131,060

Towards a systematic characterization of protein complex function: a natural language processing and machine-learning framework

bioinformatics more details view paper
  • Downloaded 444 times
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    • Site-wide: 118,076
    • In bioinformatics: 9,872
  • Year to date:
    • Site-wide: 95,323
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    • Site-wide: 88,118

Mapping specificity, entropy, allosteric changes and substrates in blood proteases by a high-throughput protease screen

biochemistry more details view paper
  • Downloaded 437 times
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    • Site-wide: 120,088
    • In biochemistry: 3,489
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    • Site-wide: 202,311
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    • Site-wide: 188,958

Chemical genetics of AGC-kinases reveals shared targets of Ypk1, Protein Kinase A and Sch9

cell biology more details view paper
  • Downloaded 432 times
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    • Site-wide: 121,408
    • In cell biology: 5,711
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    • Site-wide: 109,294
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    • Site-wide: 100,170

Sensitive detection and structural characterisation of UV-induced cross-links in protein-RNA complexes using CLIR-MS

biochemistry more details view paper
  • Downloaded 432 times
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    • Site-wide: 121,414
    • In biochemistry: 3,574
  • Year to date:
    • Site-wide: 75,411
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    • Site-wide: 63,338

Systematic dissection of phosphorylation-dependent YAP1 complex formation elucidates a key role for PTPN14 in Hippo signal integration

systems biology more details view paper
  • Downloaded 431 times
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    • Site-wide: 121,465
    • In systems biology: 2,588
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    • Site-wide: 16,065
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    • Site-wide: 21,310

Functional and spatial proteomics profiling reveals intra- and intercellular signaling crosstalk in colorectal cancer

cancer biology more details view paper
  • Downloaded 431 times
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    • Site-wide: 121,468
    • In cancer biology: 3,857
  • Year to date:
    • Site-wide: 23,373
  • Since beginning of last month:
    • Site-wide: 7,921

Integrative analysis allows a global and precise identification of functional miRNA target genes in mESCs

systems biology more details view paper
  • Downloaded 406 times
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    • Site-wide: 128,620
    • In systems biology: 2,625
  • Year to date:
    • Site-wide: 67,224
  • Since beginning of last month:
    • Site-wide: 106,513

PHENOTYPIC CHARACTERIZATION OF TWO NOVEL CELL LINE MODELS OF CASTRATION RESISTANT PROSTATE CANCER.

cancer biology more details view paper
  • Downloaded 389 times
  • Download rankings, all-time:
    • Site-wide: 133,533
    • In cancer biology: 4,069
  • Year to date:
    • Site-wide: 161,887
  • Since beginning of last month:
    • Site-wide: 105,421

7q11.23 CNV alters protein synthesis and REST-mediated neuronal intrinsic excitability

neuroscience more details view paper
  • Downloaded 386 times
  • Download rankings, all-time:
    • Site-wide: 134,274
    • In neuroscience: 21,296
  • Year to date:
    • Site-wide: 14,404
  • Since beginning of last month:
    • Site-wide: 11,602

Orthogonal proteomic platforms and their implications for the stable classification of high-grade serous ovarian cancer subtypes

cancer biology more details view paper
  • Downloaded 345 times
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    • Site-wide: 146,742
    • In cancer biology: 4,482
  • Year to date:
    • Site-wide: 174,886
  • Since beginning of last month:
    • Site-wide: 126,738

Novel biochemical, structural and systems insights into inflammatory signaling revealed by contextual interaction proteomics

systems biology more details view paper
  • Downloaded 334 times
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    • Site-wide: 150,152
    • In systems biology: 3,037
  • Year to date:
    • Site-wide: 73,297
  • Since beginning of last month:
    • Site-wide: 137,800

Integrative solution structure of a PTBP1-viral IRES complex reveals strong compaction and ordering with residual conformational flexibility

biochemistry more details view paper
  • Downloaded 276 times
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    • Site-wide: 167,636
    • In biochemistry: 5,342
  • Year to date:
    • Site-wide: 18,018
  • Since beginning of last month:
    • Site-wide: 44,580

All driven by energy demand? Integrative comparison of metabolism of Enterococcus faecalis wildtype and a glutamine synthase mutant

systems biology more details view paper
  • Downloaded 197 times
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    • Site-wide: 188,673
    • In systems biology: 3,671
  • Year to date:
    • Site-wide: 129,467
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    • Site-wide: 166,814

Proteomic Dynamics of Breast Cancers Identifies Potential Therapeutic Protein Targets

systems biology more details view paper
  • Downloaded 183 times
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    • Site-wide: 191,727
    • In systems biology: 3,734
  • Year to date:
    • Site-wide: 85,365
  • Since beginning of last month:
    • Site-wide: 132,962

Deep Domain Adversarial Neural Network for the Deconvolution of Cell Type Mixtures in Tissue Proteome Profiling

bioinformatics more details view paper
  • Downloaded 78 times
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    • Site-wide: 211,924
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