The genome polishing tool POLCA makes fast and accurate corrections in genome assemblies von Zimin, Aleksey V., Salzberg, Steven L.

Volltext

Transcriptome assembly from long-read RNA-seq alignments with StringTie2 von Kovaka, Sam, Zimin, Aleksey V, Pertea, Geo M, Razaghi, Roham, Salzberg, Steven L, Pertea, Mihaela

Volltext

The MaSuRCA genome assembler von Zimin, Aleksey V, Marçais, Guillaume, Puiu, Daniela, Roberts, Michael, Salzberg, Steven L, Yorke, James A

Volltext

The SAMBA tool uses long reads to improve the contiguity of genome assemblies von Zimin, Aleksey V, Salzberg, Steven L

Volltext

JASPER: A fast genome polishing tool that improves accuracy of genome assemblies von Guo, Alina, Salzberg, Steven L, Zimin, Aleksey V

Volltext

Chromosome-Scale Assembly of the Bread Wheat Genome Reveals Thousands of Additional Gene Copies von Alonge, Michael, Shumate, Alaina, Puiu, Daniela, Zimin, Aleksey V, Salzberg, Steven L

Volltext

The first near-complete assembly of the hexaploid bread wheat genome, Triticum aestivum von Zimin, Aleksey V, Puiu, Daniela, Hall, Richard, Kingan, Sarah, Clavijo, Bernardo J, Salzberg, Steven L

Volltext

High-quality genome and methylomes illustrate features underlying evolutionary success of oaks von Sork, Victoria L., Cokus, Shawn J., Fitz-Gibbon, Sorel T., Zimin, Aleksey V., Puiu, Daniela, Garcia, Jesse A., Gugger, Paul F., Henriquez, Claudia L., Zhen, Ying, Lohmueller, Kirk E., Pellegrini, Matteo, Salzberg, Steven L.

Volltext

Assembly and annotation of an Ashkenazi human reference genome von Shumate, Alaina, Zimin, Aleksey, Sherman, Rachel M., Puiu, Daniela, Wagner, Justin M., Olson, Nathan D., Pertea, Mihaela, Salit, Marc L., Zook, Justin M., Salzberg, Steven L.

Volltext

A Reference Genome Sequence for Giant Sequoia von Scott, Alison D, Zimin, Aleksey V, Puiu, Daniela, Workman, Rachael, Britton, Monica, Zaman, Sumaira, Caballero, Madison, Read, Andrew C, Bogdanove, Adam J, Burns, Emily, Wegrzyn, Jill, Timp, Winston, Salzberg, Steven L, Neale, David B

Volltext

Decoding the massive genome of loblolly pine using haploid DNA and novel assembly strategies von Neale, David B, Wegrzyn, Jill L, Stevens, Kristian A, Zimin, Aleksey V, Puiu, Daniela, Crepeau, Marc W, Cardeno, Charis, Koriabine, Maxim, Holtz-Morris, Ann E, Liechty, John D, Martínez-García, Pedro J, Vasquez-Gross, Hans A, Lin, Brian Y, Zieve, Jacob J, Dougherty, William M, Fuentes-Soriano, Sara, Wu, Le-Shin, Gilbert, Don, Marçais, Guillaume, Roberts, Michael, Holt, Carson, Yandell, Mark, Davis, John M, Smith, Katherine E, Dean, Jeffrey F D, Lorenz, W Walter, Whetten, Ross W, Sederoff, Ronald, Wheeler, Nicholas, McGuire, Patrick E, Main, Doreen, Loopstra, Carol A, Mockaitis, Keithanne, deJong, Pieter J, Yorke, James A, Salzberg, Steven L, Langley, Charles H

Volltext

Genome assembly and characterization of a complex zfBED-NLR gene-containing disease resistance locus in Carolina Gold Select rice with Nanopore sequencing von Read, Andrew C., Moscou, Matthew J., Zimin, Aleksey V., Pertea, Geo, Meyer, Rachel S., Purugganan, Michael D., Leach, Jan E., Triplett, Lindsay R., Salzberg, Steven L., Bogdanove, Adam J.

Volltext

The first gapless, reference-quality, fully annotated genome from a Southern Han Chinese individual von Chao, Kuan-Hao, Zimin, Aleksey V, Pertea, Mihaela, Salzberg, Steven L

Volltext

Unique features of the loblolly pine (Pinus taeda L.) megagenome revealed through sequence annotation von Wegrzyn, Jill L, Liechty, John D, Stevens, Kristian A, Wu, Le-Shin, Loopstra, Carol A, Vasquez-Gross, Hans A, Dougherty, William M, Lin, Brian Y, Zieve, Jacob J, Martínez-García, Pedro J, Holt, Carson, Yandell, Mark, Zimin, Aleksey V, Yorke, James A, Crepeau, Marc W, Puiu, Daniela, Salzberg, Steven L, Dejong, Pieter J, Mockaitis, Keithanne, Main, Doreen, Langley, Charles H, Neale, David B

Volltext

High-quality chromosome-scale assembly of the walnut (Juglans regia L.) reference genome von Marrano, Annarita, Britton, Monica, Zaini, Paulo A, Zimin, Aleksey V, Workman, Rachael E, Puiu, Daniela, Bianco, Luca, Pierro, Erica Adele Di, Allen, Brian J, Chakraborty, Sandeep, Troggio, Michela, Leslie, Charles A, Timp, Winston, Dandekar, Abhaya, Salzberg, Steven L, Neale, David B

Volltext

Assembled and annotated 26.5 Gbp coast redwood genome: a resource for estimating evolutionary adaptive potential and investigating hexaploid origin von Neale, David B, Zimin, Aleksey V, Zaman, Sumaira, Scott, Alison D, Shrestha, Bikash, Workman, Rachael E, Puiu, Daniela, Allen, Brian J, Moore, Zane J, Sekhwal, Manoj K, De La Torre, Amanda R, McGuire, Patrick E, Burns, Emily, Timp, Winston, Wegrzyn, Jill L, Salzberg, Steven L

Volltext

The Douglas-Fir Genome Sequence Reveals Specialization of the Photosynthetic Apparatus in Pinaceae von Neale, David B, McGuire, Patrick E, Wheeler, Nicholas C, Stevens, Kristian A, Crepeau, Marc W, Cardeno, Charis, Zimin, Aleksey V, Puiu, Daniela, Pertea, Geo M, Sezen, U Uzay, Casola, Claudio, Koralewski, Tomasz E, Paul, Robin, Gonzalez-Ibeas, Daniel, Zaman, Sumaira, Cronn, Richard, Yandell, Mark, Holt, Carson, Langley, Charles H, Yorke, James A, Salzberg, Steven L, Wegrzyn, Jill L

Volltext

Human contamination in bacterial genomes has created thousands of spurious proteins von Breitwieser, Florian P, Pertea, Mihaela, Zimin, Aleksey V, Salzberg, Steven L

Volltext

Hybrid assembly of the large and highly repetitive genome of Aegilops tauschii , a progenitor of bread wheat, with the MaSuRCA mega-reads algorithm von Zimin, Aleksey V, Puiu, Daniela, Luo, Ming-Cheng, Zhu, Tingting, Koren, Sergey, Marçais, Guillaume, Yorke, James A, Dvořák, Jan, Salzberg, Steven L

Volltext

A High-Resolution SNP Array-Based Linkage Map Anchors a New Domestic Cat Draft Genome Assembly and Provides Detailed Patterns of Recombination von Li, Gang, Hillier, LaDeana W, Grahn, Robert A, Zimin, Aleksey V, David, Victor A, Menotti-Raymond, Marilyn, Middleton, Rondo, Hannah, Steven, Hendrickson, Sher, Makunin, Alex, O'Brien, Stephen J, Minx, Pat, Wilson, Richard K, Lyons, Leslie A, Warren, Wesley C, Murphy, William J

Volltext