TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv0970/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0301/vapC2	(cc=0.4223)	info on Rv0301/vapC2
Rv3683/-	(cc=0.4098)	info on Rv3683/-
Rv3912/-	(cc=0.4087)	info on Rv3912/-
Rv2734/-	(cc=0.4037)	info on Rv2734/-
Rv1164/narI	(cc=0.3962)	info on Rv1164/narI
Rv1435c/-	(cc=0.3839)	info on Rv1435c/-
Rv2568c/-	(cc=0.3709)	info on Rv2568c/-
Rv2873/mpt83	(cc=0.3615)	info on Rv2873/mpt83
Rv2529/-	(cc=0.3591)	info on Rv2529/-
Rv1759c/wag22	(cc=0.3566)	info on Rv1759c/wag22

Correlation of Rv0970/- with Rv0301/vapC2

Normalized LFCs for Rv0970/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0970/-	Rv0301/vapC2
Fe_supp_jason_reseq	0.017	0.107
low_pH_jason_reseq	-0.462	-0.716
NO_jason_reseq	0.407	-0.31
B6_jason_reseq	-0.723	-0.563
MHCII_jason_reseq	-0.935	0.168
Isoniazid02	-0.383	-0.351
Rifampicin4	-0.712	-0.701
Ethambutol3	0.738	-0.513
Meropenem3	1.487	1.003
Vancomycin16	-0.663	-0.106
Rv2680_day32	0.402	0.957
H37Rv_KO_MarP	0.237	0.24
hypoxia_3wks	0.291	-0.12
hypoxia_6wks	-0.938	-0.071
glycerol	-0.519	-0.718
cholesterol	0.585	-0.149
AJ	0.437	-0.561
Bibs02	0.332	0.06
Bibs02c	-0.094	0.612
BL6	-0.22	-0.021
BL6a	0.409	0.574
BXD01	-0.373	0.614
BXD010	0.555	0.176
BXD011	0.784	0.591
BXD03	-0.03	0.127
BXD04	-0.391	0.576
BXD05	0.15	0.468
BXD06	0.421	0.323
BXD07	-0.256	0.693
BXD08	0.306	0.55
BXD09	-0.471	0.397
CAST	0.18	0.357
CCcont	-0.289	0.676
DS01	-0.457	0.243
DS02	-0.2	0.726
DS04	-0.711	0.1
DS0c	1.053	0.311
GP01	1.114	1.151
GP02	0.568	0.787
GP0c	0.337	0.471
NOD	-0.687	-0.408
NZO	-0.266	-0.212
PWK	0.308	-0.139
H37Rv_KO_CtpC	0.255	-0.151
H37Rv_KO_CtpD	-0.057	0.493
H37Rv_KO_Rv1272	0.366	0.137
H37Rv_KO_SugABC	0.969	0.367
H37Rv_KO_MbtN	0.066	0.486
Trans05	1.066	0.521
macrophage_unactivated	-0.06	0.638
IL1	0.027	0.466
Rapamycin	-0.206	-0.074
Tcell	0.15	0.251
GMCSF	-0.074	0.782
IFNab	0.193	1.442
IFNg	0.468	0.722
IFNg_GMCSF1	0.525	0.918
Rv1432_day32	-0.966	0.039
Rv1565c_day32	-1.21	0.193
secA2_input	0.182	0.756
delta_Rv3594	-0.265	-1.398
delta_Rv3717	-0.345	-0.795
delta_Rv3811	-0.369	-0.696
delta_Rv0954	0.121	-0.457
PonA1	-0.271	-0.26
EccD1_KO	0.089	0.53
EspI_KO	-0.385	0.271
PE35_KO	-0.277	-0.563
PPE68_KO	-0.211	-0.502
glycerol2	-0.527	0.261
lignocerate	0.106	0.468
oleate	0.043	-0.221
phosphatidylcholine	-0.13	0.197
acetate	0.098	0.341
glucAc	1.209	0.531
Rv0950ko	0.76	0.962
Rv1096ko	0.461	0.22
Rv3684ko	0.904	0.789
delta_otsA_trehalose	0.0	0.404