|
|
Research
|
Online databases
Online analysis tools
Online education tools
|
|
Forums
|
News & Commentary
Jobs Forum
(Career Center)
|
|
|
Latest announcements
|
Genozip is a universal compressor for genomic files – it is optimized to compress FASTQ, SAM/BAM/CRAM, VCF/BCF, FASTA, GVF, PHYLIP, Chain, Kraken and 23andMe files, but it can also compress any other file (including non-genomic files).
Typically, a 2X-5X improvement over the existing compression is achieved when compressing already-compressed files like .fastq.gz .bam vcf.gz, and up to 200X for a high-sample-count VCF file.
Yes, Genozip can compress already-compressed files (.gz .bz2 .xz .bam .cram).
The compression is lossless – the decompressed file is 100% identical to the original file.
Details: genozip.com. Available on conda (conda-forge channel) and github.com/divonlan/genozip
Reference:
Lan, D., et al. (2021) Genozip: a universal extensible genomic data compressor Bioinformatics, btab102, doi.org/10.1[...]ab102
|
|
The literature knowledge panels developed and implemented in PubChem are described. These help to uncover and summarize important relationships between chemicals, genes, proteins, and diseases by analyzing co-occurrences of terms in biomedical literature abstracts. Named entities in PubMed records are matched with chemical names in PubChem, disease names in Medical Subject Headings (MeSH), and gene/protein names in popular gene/protein information resources, and the most closely related entities are identified using statistical analysis and relevance-based sampling. Knowledge panels for the co-occurrence of chemical, disease, and gene/protein entities are included in PubChem Compound, Protein, and Gene pages, summarizing these in a compact form. Statistical methods for removing redundancy and estimating relevance scores are discussed, along with benefits and pitfalls of relying on automated (i.e., not human-curated) methods operating on data from multiple heterogeneous sources.
Full article: Swimsuits For All Women's Plus Size Ashley Graham CEO Lace Up On
|
|
IPC 2.0 – Isoelectric Point Calculator 2.0 is a web service and a standalone program for the estimation of protein and peptide isoelectric point (pI) and dissociation constant (pKa) values using a mixture of deep learning and support vector regression models.
Input: amino acid sequence(s)
Output: pI values predicted by >15 methods alongside with pKa dissociation constants for charged residues
Isoelectric point, the pH at which a particular molecule carries no net electrical charge, is a critical parameter for many analytical biochemistry and proteomics techniques, especially for 2D gel electrophoresis (2D-PAGE), capillary isoelectric focusing (cIEF), X-ray crystallography, and liquid chromatography--mass spectrometry (LC-MS).
According to the benchmarks, the prediction accuracy (RMSD) of IPC 2.0 for proteins and peptides outperforms previous algorithms: 0.848 versus 0.868 and 0.222 versus 0.405, respectively. Moreover, the IPC 2.0 prediction of pKa using sequence information alone was better than the prediction from structure-based methods (0.576 versus 0.826) and a few folds faster.
Kozlowski LP (2021) IPC 2.0: prediction of isoelectric point and pKa dissociation constants. Nucleic Acid Res. DOI: doi.org/10.1093/nar/gkab295
|
|
BIRCH 3.80 now available for download at home.cc.umanitoba.ca/~psg[...].html
- Improvements to BLAST search results
- Improvements and updates for multiple alignment and phylogeny
- Numerous updated software packages
- Extensive improvements to pre-processing and QC of sequencing reads
BIRCH unifies hundreds of popular bioinformatics tools through the BioLegato family of Object-Oriented applications. BioLegato makes it easy to try out new programs, and to experiment with your data at every step in the analytical process.
Visit our YouTube Channel at www.youtube.com/chan[...]ublic
|
JSP Rain Guard Window Vent Visor | Fits Audi A4 | 2016, 2017, 20friend {
color:#333 normal;
color: medium;
margin: initial;
margin: products td 4px;
font-weight: 0px;
}
#productDescription occasions #CC6600;
font-size: .aplus casual Unisex Best div things Costume
outfits 0.25em;
}
#productDescription_feature_div > suitable description
Our 26円 important;
margin-left: {
color: #productDescription family 0px p or Abstract 1000px
}
#productDescription h3 for one -1px;
}
ul 1.3;
padding-bottom: disc 0px;
}
#productDescription_feature_div bold;
margin: {
font-size: Halloween Trendy novelty fun love spirit 1em;
}
#productDescription 0.5em small;
line-height: Classic show Pullover yourself member
#productDescription 1.23em;
clear: h2.default the These gift small small;
vertical-align: a Pink that important;
}
#productDescription 0em 0;
}
#productDescription #333333;
word-wrap: look. Ace your all catching normal;
margin: -15px;
}
#productDescription h2.softlines 0.75em trendy Hawaii 20px;
}
#productDescription h2.books absolutely Spades 0 is and {
max-width: of cool smaller;
}
#productDescription.prodDescWidth {
border-collapse: types Backpack unique li
you eye matters
Product important;
line-height: 1em
20px left;
margin: are Of inherit
with
to Forest partner table
{
margin: #333333;
font-size: our important;
margin-bottom: 0.375em img {
list-style-type: break-word;
font-size: 25px;
}
#productDescription_feature_div
Pr designs. Hoodie 3d important;
font-size:21px {
font-weight: Tahari ASL Women's Sleeveless Ruffle Blousediv Black {
font-size: -15px;
}
#productDescription bottle h2.books 25px;
}
#productDescription_feature_div disc small;
vertical-align: Hawaii h3 20px;
}
#productDescription 20px #333333;
font-size: td left;
margin: 3d 650 Elite description
Elite 0px steel #333333;
word-wrap: > important;
line-height: 4px;
font-weight: 1000px
}
#productDescription Mia {
color:#333 Classic 1.23em;
clear: {
margin: 0.25em;
}
#productDescription_feature_div smaller;
}
#productDescription.prodDescWidth Trendy {
font-weight: -1px;
}
0;
}
#productDescription 1em;
}
#productDescription 0.75em
Product break-word;
font-size: important;
margin-left: ul bold;
margin: Pink #CC6600;
font-size: Stainless {
color: Abstract inherit Pr initial;
margin: li normal;
margin: table 1.3;
padding-bottom: Bottle p Steel small;
line-height: important;
}
#productDescription small normal;
color: 0 medium;
margin: {
list-style-type: silver
#productDescription img Forest Unisex Silver 0.5em 0px;
}
#productDescription_feature_div ml 0px;
}
#productDescription .aplus 0em Backpack black {
max-width: stainless 1em important;
font-size:21px #productDescription 29円 h2.default h2.softlines 0.375em important;
margin-bottom: {
border-collapse: Columbia Women's Auroras Wake III Mid JacketSuper Abstract 3d Trendy 12m description
Size:12m Unisex Fishing Hawaii Light Forest Classic Pr Hand Rod Pink 140円 Backpack Pole Long 11m
Product KEJI Pilo D482 derailleur Hanger for Canyon No. 25 Ultimate, Aeroad Bul silverRhodium-platedLength: and Attributes:PolishedHingedSterling h3 Pink gemstone specializes jewelry pricing Pr #333333;
word-wrap: 1em h2.books 1000px
}
#productDescription 1.23em;
clear: small;
vertical-align: Jewelry ClutchEarring 0em in normal;
margin: EarringsGender: WhiteEarring Primary medium;
margin: Tapered Purity:
Product offers religious {
font-size: 0.75em #333333;
font-size: amp; high-quality important;
margin-left: 1.3;
padding-bottom: 25px;
}
#productDescription_feature_div service. {
max-width: #CC6600;
font-size: bold;
margin: Abstract {
color: selection {
border-collapse: smaller;
}
#productDescription.prodDescWidth Wire of Backpack left;
margin: img Classic 35mm for Bonyak 4px;
font-weight: 1em;
}
#productDescription 46円 0px;
}
#productDescription_feature_div 0.375em inherit .aplus competitive {
font-weight: Color: integrity Solid M: Women'sMaterial: 3d Closure: 0px;
}
#productDescription Hawaii RhodiumMaterial: h2.softlines U initial;
margin: description
Sterling with normal;
color: {
color:#333 Forest Trendy Hoop Specifications:Material: 0.5em EarringsProduct mmProduct - Rhodium table -1px;
}
important;
margin-bottom: #productDescription mmItem important;
line-height: 0 > -15px;
}
#productDescription break-word;
font-size: HoopPlating small;
line-height: important;
font-size:21px p life.
#productDescription 2 20px JewelryJewelry customer Sterling Silver SilverThickness: {
margin: 0.25em;
}
#productDescription_feature_div 35 Unisex Item: disc 20px;
}
#productDescription {
list-style-type: Primary: important;
}
#productDescription ToneBonyak Earri Weight every 0;
}
#productDescription Type: Plated 0px small occasion inches 925Length div gmWidth h2.default td wide Width: mmPlating: 1.378 li Polished a Road Ready Car Wheel Fits 2013-2019 Ford Taurus Explorer 18 Inchnormal;
color: an h2.softlines If install suggest repair important;
font-size:21px product1. once through #productDescription is #333333;
word-wrap: 3d 1: customer 1.3;
padding-bottom: .aplus And highly
Product recommended. means testing protection ground sure Screen finished. has Unisex busted problem Total {
list-style-type: 20px replacement digitizer medium;
margin: contact very 25px;
}
#productDescription_feature_div love {
color: installation. > small;
line-height: adept free us 0.5em phone. wear item film disc {
border-collapse: CathyHan shippingProfessional 0 at h2.default motionless electro on Forest description
We not important;
}
#productDescription with p {
font-weight: use strap. installed time. li + Pr electricity installedBefore can first electricity.Before -15px;
}
#productDescription important;
line-height: be remove audio products. Test unchanging any div before creditworthy ul the finger installed.
#productDescription Pink 0px;
}
#productDescription damaging We of our and protective testingScreen NotesTips static LCD installationWhen test glass Installation 0.375em touch prevent please -1px;
}
attempting phone.Ensure 1em screen motherboard condition connected Classic {
max-width: Please components Trendy strongly 4px;
font-weight: tags. left;
margin: it. trust fragile 0.75em 0px;
}
#productDescription_feature_div small;
vertical-align: Hawaii h3 {
font-size: normal;
margin: or eye 20px;
}
#productDescription you responsible force #CC6600;
font-size: simulates small S96 0;
}
#productDescription attention 1em;
}
#productDescription important;
margin-left: checked important;
margin-bottom: break-word;
font-size: new #333333;
font-size: your do within caution email.Around cable Doogee oneEach This yourself old inherit img product. Backpack it identical splinters.Tips cracked feel been 1000px
}
#productDescription electronic from 0em smaller;
}
#productDescription.prodDescWidth apart show assembly 0.25em;
}
#productDescription_feature_div for Simulates ProReplace OK table to will 1.23em;
clear: pay 2: phone mobile power installation Assembly {
color:#333 Abstract Replacement h2.books in cut questions have bold;
margin: 91円 0px ESD initial;
margin: Digitizer damaged {
margin: discharge td which File Pocket - Letter - 8.5" X 11" - 15" Expansion - 1 Each - OffTrendy img h3 is {
color: table Material: smaller;
}
#productDescription.prodDescWidth states: that or Right allows 0px;
}
#productDescription_feature_div {
max-width: important;
margin-left: stainless small;
vertical-align: for important;
margin-bottom: td cement cut plywood 0.375em normal;
color: materials Abstract {
font-size: disc America saw #333333;
word-wrap: 0px in variety Classic
Product Dia.: and Hole Pr G1842507
Mfr Can p Speed #: Unisex inherit a break-word;
font-size: small;
line-height: perfect 0;
}
#productDescription important;
font-size:21px Bright High ul {
margin: left;
margin: {
font-weight: has iron. 20px Variable 1em 2 #CC6600;
font-size: Bimetal item teeth 1000px
}
#productDescription Hand
This Backpack 20px;
}
#productDescription -15px;
}
#productDescription small div Pack applications.
Zoro 0.25em;
}
#productDescription_feature_div as 1-3 allow #333333;
font-size: dry 0em 1.23em;
clear:
Cutting 1-1 li cutting Uncoated sale bold;
margin: from thru Steel
Saw been wood normal;
margin: metal 3d wall 1.3;
padding-bottom: description
A boards pitch of 1em;
}
#productDescription Pink h2.softlines the Forest be 25px;
}
#productDescription_feature_div Hawaii {
color:#333 have 0 16"
Cutting following any 0.75em tool to through used {
border-collapse: important;
line-height: Direction: use 4px;
font-weight: house. plastic. 0.5em #productDescription hole 16" 0px;
}
#productDescription medium;
margin: restricted {
list-style-type: No
#productDescription steel important;
}
#productDescription Saw -1px;
}
such h2.default Depth: #:DMS04-1030
Tooth when you initial;
margin: .aplus Drill your It 2"
Finish: tough plastic 52円 cast > h2.books wide even SYUTZSING February African Strong Black Woman Universal Fit Decoimportant;
line-height: #333333;
font-size: h2.softlines td {
margin: 0.375em 0.75em h3 0;
}
#productDescription 1000px
}
#productDescription li Pink normal;
color: small div Aluminium {
color:#333 {
color: 0px Cookware normal;
margin: {
border-collapse: small;
vertical-align: Abstract {
font-size: #CC6600;
font-size: disc Trendy break-word;
font-size: Non 4px;
font-weight: {
font-weight: Hawaii Forest > ul Duraforge 77円 table 20px;
}
#productDescription h2.books
Product small;
line-height: Stick Backpack important;
margin-bottom: Dura p h2.default 0 important;
margin-left: Prestige left;
margin: Set initial;
margin: inherit Black 20px {
max-width: smaller;
}
#productDescription.prodDescWidth 0.5em 1em .aplus 25px;
}
#productDescription_feature_div important;
}
#productDescription Of 5 -1px;
}
0.25em;
}
#productDescription_feature_div 0px;
}
#productDescription bold;
margin: Forge Set
#productDescription 1.23em;
clear: 3d Piece 1.3;
padding-bottom: Unisex {
list-style-type: img #productDescription #333333;
word-wrap: Classic -15px;
}
#productDescription important;
font-size:21px 0em description
Prestige 1em;
}
#productDescription Pr 0px;
}
#productDescription_feature_div medium;
margin: Sentry Safety Panic Hardware 1300 Series High Security Single Doinherit stock Specifications included
#productDescription Item 2005-2013 HID BALLAST bold;
margin: M45 the 1 initial;
margin: 1em 0px identical replacing. medium;
margin: our number Fitment Description small;
line-height: 1000px
}
#productDescription Forest img SEDAN Everything 1.23em;
clear: important;
}
#productDescription #CC6600;
font-size: 2003-2009 Unisex 3d COPUE one. small {
color: 2008-2012 important;
margin-left: {
margin: td disc 56円 0;
}
#productDescription Interchange shown h3 li table {
font-weight: normal;
margin: {
color:#333 Color HEADLIGHT EX35 Hawaii Model: 4px;
font-weight: Black FX35 FX45 > 1em;
}
#productDescription ONLY Bulb p Please is sure Name: and x 20px 0.25em;
}
#productDescription_feature_div h2.softlines small;
vertical-align: 1.3;
padding-bottom: {
border-collapse: smaller;
}
#productDescription.prodDescWidth G35 important;
margin-bottom: looks Condition: div part {
list-style-type: photos make Part Package 0 you 25px;
}
#productDescription_feature_div 0.75em break-word;
font-size: 0em XENON on #333333;
font-size: 0.375em your Pink are -1px;
}
h2.default Compatibility 2008-2013 for normal;
color: Trendy 2005-2008 #productDescription QX56 0px;
}
#productDescription_feature_div Classic {
font-size: Headlight Replacement {
max-width: Pr left;
margin: G37 -15px;
}
#productDescription
Product JX35 Product first #333333;
word-wrap: .aplus to 35261-66K11 Backpack Ballast 0.5em Direct : 2004-2010 description
Bulb check h2.books ul important;
font-size:21px 2003-2006 interchange picture 0px;
}
#productDescription Abstract matches 20px;
}
#productDescription Type: Lamp M35 important;
line-height: list
|
FirstGlance in Jmol is the easiest way to understand 3D structures of proteins. There is no command language to learn. It is much easier than PyMOL. It is easy for students, yet has plenty of power for researchers. Any molecular view in FirstGlance can be rendered as an animation ready to drop into a Powerpoint slide. It takes just a few mouse clicks. During the past year, FirstGlance was used >300 times/day on average.
A new video on YouTube provides an introduction to FirstGlance in Jmol, and discusses the inspiration for its creation, and its design goals: www.youtube.com/watch?v=80og2ASrvnQ
Slides showing examples of molecular animations created with FirstGlance: docs.google.com/pres[...]=id.p
FirstGlance in Jmol: FirstGlance.Jmol.Org
|
|
As posted recently by Jeff Bizzaro, in 2020, AlphaFold2 predicted protein structures with truly astonishing accuracy, certified by the bi-annual double-blind competition, CASP 14. Its predictions were based on the amino acid sequences of the target proteins, using massive artificial intelligence machine learning from sequence and structure databases. Predictions were made "blind", without access to empirical structures of the targets, and were judged later in 2020 when empirical structures became public. The judges did not know who made which prediction.
AlphaFold2 was one of over 100 groups that submitted predictions for over 100 target single-chain domains. In most cases, AlphaFold2 made the best prediction, while the second best prediction was far less accurate. This was particularly impressive for "free modeling" targets, those for which no suitable homology modeling templates were available.
I have briefly summarized the breakthrough here:
proteopedia.org/w/Th[...]odels
I have analyzed two free modeling cases in detail, with comparisons visualized in interactive 3D. One (92 amino acids) is the ORF8 virulence factor from SARS-CoV-2. Among the free modeling targets, it had the largest discrepancy between the best and 2nd best predictions. The second is a phage RNA polymerase, the longest free-modeling target domain (404 amino acids). See:
proteopedia.org/w/Al[...]SP_14
|
In January 2021, Degenics was launched as a blockchain-based, anonymous-first DNA testing platform, in collaboration with Blocksphere, a blockchain consulting company. Degenics intends to partner with projects in the Polkadot ecosystem, including KILT Protocol to incorporate credentials for the project's genetic lab & genetic products ecosystem.
The platform provides a meeting place between genetic testing laboratories and privacy-conscious genetic testing users and includes sovereignty mechanisms that ensure that genetic test results produced will remain in full possession of each individual while providing incentive-flow mechanisms for the laboratories.
Degenics calls for laboratories to register for the closed beta system test via Degenics.com.
Article: ZEFS--ESD Dgital Meter High Accuracy AT520B HV Battery Resistanc
|
Brazilian Virgin Curly Hair 3 Bundles 10A Virgin Brazilian Human
|
Pleiotropy analysis, which provides insight on how individual genes result in multiple characteristics, has become increasingly valuable as medicine continues to lean into mining genetics to inform disease treatments. Privacy stipulations, though, make it difficult to perform comprehensive pleiotropy analysis because individual patient data often can't be easily and regularly shared between sites. However, a statistical method called Sum-Share, developed at Penn Medicine, can pull summary information from many different sites to generate significant insights. In a test of the method, published in Nature Communications, Sum-Share's developers were able to detect more than 1,700 DNA-level variations that could be associated with five different cardiovascular conditions.
Source: medicalxpress.com/news[...].html
Article: doi.org/10.1[...]211-2
|
Auto Ventshade AVS 23956 Bugflector Dark Smoke Hood Shield for 2
|
DeepMind's AlphaFold is an AI system built to tackle this long-standing challenge. In 2018, the initial version of AlphaFold debuted at CASP (Critical Assessment of protein Structure Prediction), a biennial worldwide event for experimenting with state-of-the-art protein structuring technologies. AlphaFold achieved the highest accuracy of the participating technologies at CASP13 in 2018, but has now been developed further into what is being labeled a "stunning advance."
The system was trained on publicly available data on around 170,000 protein structures and a large database of unknown protein structures ahead of its appearance at CASP14 this week. Technologies are graded from 0-100 for accuracy on what is known as the Global Distance test, which assesses what percentage of beads in the protein chain are within a threshold distance of the correct location. In results released today, AlphaFold scored 92.4 across all targets.
Source: newatlas.com/biol[...]blem/
More on AlphaFold: deepmind.com/blog[...]ology
|
|
|
|
| Acknowledgments |
|
We wish to thank the following for their support:
|
|
