Organism	Strain	NCBI	Title	PMID/DIO
Trichoderma asperellum	--	GSE230614	Gene expression of Ts93 under copper stress	--
Trichoderma cf. simile	--	GSE285891	Genome and transcriptome analysis of the lignite-degrading Trichoderma cf. simile WF8 strain highlights potential degradation mechanisms	10.1016/j.ibiod.2025.105997
Trichoderma reesei	QM9414	GSE260567	Transcriptomic changes caused by mutation in xylanase regulator 1 (xyr1) in Trichoderma reesei	39030601
Trichoderma reesei	RUT-C30	GSE263516	Melanization of fungal necromass drives the upregulation of multiple chitinase, protease, and laccase genes when being degraded by Trichoderma reesei	--
Trichoderma reesei	QM6a	GSE222724	A G-protein coupled receptor supports methionine response in Trichoderma reesei	--
Trichoderma harzianum	--	GSE252008	Growth, enzymatic, and transcriptomic analysis of xyr1 deletion reveals a major regulator of plant biomass-degrading enzymes in Trichoderma harzianum	38397385
Trichoderma reesei	RUT C-30	GSE233738	Effect of the res-2 transcription factor gene deletion on protein secretion and stress response in the hyperproducer strain Trichoderma reesei Rut-C30	38036984
Trichoderma reesei	QM6a	GSE222127	Functions of STE12 in Trichoderma reesei	38671155
Trichoderma atroviride	--	GSE235273	LOX1 and PLP1 dependent transcriptional reprogramming is essential for injury induced conidiophore development in a filamentous fungus	37943049
Trichoderma harzianum	--	GSE229209	Plant recognition by Trichoderma harzianum elicits upregulation of a novel secondary metabolite cluster required for colonization	--
Trichoderma reesei	QM6a	GSE216955	RGS4 impacts carbohydrate and siderophore metabolism in Trichoderma reesei	37400774
Trichoderma asperelloides	--	GSE207066	Differential expression of cell wall remodeling genes is part of the dynamic phase-specific transcriptional program of conidial germination of Trichoderma asperelloides	36012842
Trichoderma guizhouense	NJAU4742	GSE176374	Transcriptome sequencing of Trichoderma guizhouense NJAU4742 and its mutants when induced by different polysaccharides or carbon starvation	35842666
Trichoderma reesei	QM6a	GSE128585	RNAseq analysis of Trichoderma reesei QM6a and Δace1 transferred to MA medium containing 1% D-mannitol as carbon source	--
Trichoderma atroviride	--	GSE197448	RNAi components regulate the microparasitism in Trichoderma atroviride	10.1128/spectrum.03165-23
Trichoderma atroviride	--	GSE190033	RNAi components regulate the micoparasitism in Trichoderma atroviride	10.1128/spectrum.03165-23
Trichoderma reesei	--	GSE187573	Transcriptome study of the deletion of vacuolar protein sorting related vps13 and vps21 in Trichoderma reesei	--
Trichoderma virens	--	GSE181269	Early transcriptome response of Trichoderma virens to colonization of maize roots	35448603
Trichoderma atroviride	--	GSE152652	Drosophila attack inhibits hyphal regeneration and defense mechanisms activation for the fungus Trichoderma atroviride	34282283
Trichoderma atroviride	IMI 206040	GSE165935	A global analysis of photoreceptor-mediated transcriptional changes reveals the intricate relationship between central metabolism and DNA repair in the filamentous fungus Trichoderma atroviride	34566928
Trichoderma reesei	RUT-C30 (ATCC 56765)	GSE82287	Growing Trichoderma reseei on a mix of carbon sources reveals links between development and cellulase production	33302864
Trichoderma reesei	--	GSE147192	The effects of gul1 deletion on the transcriptome of Trichoderma reesei	33693788
Trichoderma reesei	QM6a	GSE144529	The G-protein coupled receptor GPR8 regulates secondary metabolism and mating associated chemical communication in Trichoderma reesei	--
Trichoderma reesei	--	GSE84613	Comparative analysis of the Trichoderma reesei transcriptome during ethanol fermentation under anaerobic and aerobic condition	--
Trichoderma reesei	--	GSE84393	Transcription analysis of recombinant Trichoderma_reesei strains reveals the molecular basis for fermentation of glucose and xylose	--
Trichoderma reesei	--	GSE131419	Transcriptome analysis of deletion of protein kinase A, catalytic subunit 1 in T. reesei upon growth on cellulose in light and darkness	31528353
Trichoderma reesei	--	GSE119126	YPR2 is a light dependent regulator of carbon and secondary metabolism in Trichoderma reesei	30866811
Trichoderma virens	--	GSE125225	Transcriptomic analysis of the Trichoderma virens- Arabidopsis thaliana interaction	32101077
Trichoderma atroviride	--	GSE123330	Global transcriptional regulation by small non-coding RNAs is required for the response to injury of a filamentous fungus	36239595
Trichoderma reesei	--	GSE100602	Global Transcriptome and Gene Regulatory Network of MAPK Signaling Pathway in Trichoderma reesei During Sugarcane Bagasse Degradation	30297963
Trichoderma atroviride	--	GSE115811	Danger signals activate the innate immune system of a filamentous fungus during regeneration	30500812
Trichoderma asperellum	--	GSE114217	Transcriptome profile of Trichoderma asperellum challenged with Organophosphorus Pesticide Dichlorvos	30089471
Trichoderma atroviride; Trichoderma virens; Trichoderma reesei	--	GSE66835	Transcriptomic analysis of the biocontrol fungus Trichoderma atroviride overgrowing Verticilluim dahliae provides the identification of mycoparasitic candidate genes aganinst this plant pathogenic fungus	31191472
Trichoderma reesei	--	GSE89104	Transcriptome analysis of T. reesei CBS999.97, backcrossed female fertile strains in QM6a genetic background and QM6a upon mating	--
Trichoderma reesei	--	GSE104606	ARA1 regulates not only L-arabinose but also D-galactose catabolism in Trichoderma reesei	29215697
Trichoderma reesei	--	GSE89199	Genome sequencing and transcriptome analysis of Trichoderma reesei QM9978 reveals vib1 to be essential for cellulase induction	28912831
Trichoderma reesei	--	GSE99441	Transcriptome analysis of deletion of cre1 in T. reesei upon growth on cellulose in light and darkness	28809958
Trichoderma reesei	--	GSE57374	Genome-wide RNA-seq analysis during carbon catabolite repression in Trichoderma reesei reveals a multilevel control of cellulase production and action	25459535
Trichoderma reesei	--	GSE66915	Genome-wide RNA-seq analysis during CRE1-mediated carbon catabolite repression in Trichoderma reesei grown in sophorose	27226768
Trichoderma reesei	--	GSE66982	Transcriptional landscape of XYR1 in Trichoderma reesei during the degradation of cellulosic material	26248555
Trichoderma reesei	--	GSE89103	Transcriptome analysis of T. reesei CBS999.97, backcrossed female fertile strains in QM6a genetic background and QM6a upon growth on cellulose	28916559
Trichoderma reesei	--	GSE81365	Transcriptome analysis of T. reesei upon growth on different carbon sources in light and darkness	28497120
Trichoderma reesei; Trichoderma reesei QM9414	--	GSE69745	Analysis of wheat straw grown Trichoderma reesei gene expression as influenced by L-methionine in the medium	26271614
Trichoderma reesei	--	GSE59600	The ß-importin KAP8 (Pse1/Kap121) is required for nuclear import of the cellulase transcriptional regulator XYR1, asexual sporulation and stress resistance in Trichoderma reesei	25626518
Trichoderma virens	--	GSE64344	Host-specific transcriptomic pattern of Trichoderma virens during interaction with maize or tomato roots	25608961
Trichoderma reesei	--	GSE60908	Kinetic transcriptome study reveals an essentially intact cellulase induction system in a cellulase hyper-producer Trichoderma reesei strain	25550711
Trichoderma reesei	--	GSE53629	Decoding the black box of cellulase formation in Hypocrea jecorina by RNA-Seq analysis	24655731
Trichoderma reesei	QM9414	GSE55652	The transcriptome of lae1 mutants of Trichoderma reesei cultivated at constant growth rates reveals new targets of LAE1 function	--
Trichoderma reesei	--	GSE53874	Transcriptome analysis of deletion of adenylate cyclase in T. reesei upon growth on cellulose in light and darkness	24893562
Trichoderma reesei; Trichoderma reesei QM9414	--	GSE46155	Comparative analysis of the Trichoderma reesei transcriptome during growth on the cellulase inducing substrates wheat straw and lactose	24016404
Trichoderma reesei	--	GSE39276	Systemic analysis of lactose metabolism in Trichoderma reesei identifies a lactose permease that is essential for cellulase induction	23690947
Trichoderma reesei	--	GSE44648	Genome-wide transcriptional response of the filamentous fungus Trichoderma reesei to lignocellulose using RNA sequencing and comparison with Aspergillus niger	24060058
Trichoderma reesei	--	GSE39111	Expression analysis of Hypocrea jecorina CBS999.97(MAT1-2) wild-type and delta-env1 strains in four different light and darkness conditions	23028710
Trichoderma reesei	QM6a	GSE37518	The gene expression difference in strain AT01, a mutant of Trichoderma reesei, with high ability of copper accumulation	--
Trichoderma reesei	QM9414	GSE36448	Expression analysis of Trichoderma reesei QM9414 and delta-blr1, delta-blr2 and delta-env1 in light and darkness	24893562
Trichoderma harzianum; Trichoderma virens; Trichoderma hamatum; Trichoderma reesei	--	GSE29171	Comparative study of transcriptomes from four Trichoderma strains gene expression in early interaction with tomato plants	22075029
Trichoderma reesei	--	GSE30458	Expression analysis of protein production in the filamentous fungus Trichoderma reesei (Hypocrea jecorina)	22185473
Trichoderma reesei	--	GSE27471	Transcriptome during shift of Trichoderma reesei from mycelial growth to asexual sporulation	21890820
Trichoderma virens; Trichoderma reesei; Trichoderma atroviride	--	GSE23438	Trichoderma sp. transcript levels during mycoparasitism	21501500
Trichoderma reesei	--	GSE23410	richoderma reesei transcript levels during mycoparasitism	21501500
Trichoderma atroviride	--	GSE23382	Trichoderma atroviride transcript levels during mycoparasitism	21501500
Trichoderma virens	--	GSE19832	Trichoderma virens transcript levels during mycoparasitism	21501500
Trichoderma reesei	--	GSE21072	The CRE1 carbon catabolite repressor of the fungus Trichoderma reesei: a master regulator of carbon assimilation	21619626
Trichoderma reesei	--	GSE27581	Expression analysis of Trichoderma reesei QM9414 and delta-phlp1, delta-gnb1 and delta-gng1 in light and darkness.	22182583
Trichoderma reesei	--	GSE22687	Effect of LAE1 gene deletion on gene expression in Trichoderma	23390613
Trichoderma virens; Trichoderma atroviride	--	GSE24630	Expression array for Trichoderma harzianum T34 and nox1 overexpressed transformant Tnox5 strains in dual culture with Pythium ultimum	21421791
Trichoderma reesei	--	GSE12960	Detecting novel genes with sparse arrays	20691772
Trichoderma harzianum	--	GSE13776	Trichoderma harzianum CECT 2413 expression in liquid basal medium or glucose-, chitin-, or tomato plant-containing media	19825185
Trichoderma atroviride	--	GSE5578	LightResponse	17074901