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 Rv1672c/-:

update plot	correlation	link to info on gene
Rv0454/-	(cc=0.4989)	info on Rv0454/-
Rv1215c/-	(cc=0.4562)	info on Rv1215c/-
Rv2333c/stp	(cc=0.4353)	info on Rv2333c/stp
Rv1579c/-	(cc=0.4329)	info on Rv1579c/-
Rv0532/PE_PGRS6	(cc=0.4313)	info on Rv0532/PE_PGRS6
Rv3174/-	(cc=0.4286)	info on Rv3174/-
Rv1105/-	(cc=0.4182)	info on Rv1105/-
Rv1290c/-	(cc=0.418)	info on Rv1290c/-
Rv0078A/-	(cc=0.4078)	info on Rv0078A/-
Rv1482c/-	(cc=0.4058)	info on Rv1482c/-

Correlation of Rv1672c/- with Rv0454/-

Normalized LFCs for Rv1672c/-:
(description and provenance of datasets)

	Rv1672c/-	Rv0454/-
Fe_supp_jason_reseq	0.388	-0.603
low_pH_jason_reseq	-0.549	-1.353
NO_jason_reseq	0.163	-0.701
B6_jason_reseq	-0.295	-0.519
MHCII_jason_reseq	-0.09	-0.323
Isoniazid02	1.635	2.137
Rifampicin4	-0.089	0.29
Ethambutol3	2.692	4.387
Meropenem3	0.412	0.593
Vancomycin16	0.329	0.241
Rv2680_day32	-0.656	0.579
H37Rv_KO_MarP	-0.425	-0.357
hypoxia_3wks	0.861	0.407
hypoxia_6wks	1.746	0.787
glycerol	0.392	0.483
cholesterol	0.017	-1.043
AJ	0.358	0.351
Bibs02	0.225	0.217
Bibs02c	-0.209	-0.767
BL6	0.231	-0.395
BL6a	0.092	-0.458
BXD01	0.146	0.155
BXD010	0.502	-0.053
BXD011	0.0	-0.006
BXD03	0.461	-0.163
BXD04	0.24	0.049
BXD05	-0.016	0.47
BXD06	-0.032	0.069
BXD07	0.722	0.017
BXD08	0.205	0.079
BXD09	0.628	-0.202
CAST	-0.055	-0.364
CCcont	0.017	-0.12
DS01	0.137	-0.339
DS02	0.904	0.154
DS04	0.09	0.661
DS0c	0.627	0.121
GP01	0.068	0.632
GP02	0.47	-0.254
GP0c	-0.218	-0.778
NOD	-0.345	0.159
NZO	0.224	0.126
PWK	0.242	0.358
H37Rv_KO_CtpC	0.267	0.866
H37Rv_KO_CtpD	0.443	0.065
H37Rv_KO_Rv1272	-0.178	1.187
H37Rv_KO_SugABC	-0.208	1.824
H37Rv_KO_MbtN	0.37	-0.202
Trans05	0.365	1.495
macrophage_unactivated	-0.107	-1.382
IL1	0.033	-1.053
Rapamycin	0.267	-0.601
Tcell	0.991	-0.085
GMCSF	0.37	0.15
IFNab	-0.139	0.094
IFNg	0.535	-1.04
IFNg_GMCSF1	0.207	0.195
Rv1432_day32	2.048	0.873
Rv1565c_day32	0.6	-0.641
secA2_input	-0.257	0.346
delta_Rv3594	0.439	0.239
delta_Rv3717	0.072	-0.891
delta_Rv3811	0.596	0.068
delta_Rv0954	0.127	-0.317
PonA1	-0.57	-0.431
EccD1_KO	-0.385	-0.681
EspI_KO	-0.55	-0.764
PE35_KO	0.694	-0.473
PPE68_KO	0.544	-1.024
glycerol2	-0.165	-0.014
lignocerate	-0.166	-0.057
oleate	0.176	-0.143
phosphatidylcholine	0.067	-0.371
acetate	-0.286	-0.514
glucAc	-0.086	-0.65
Rv0950ko	0.039	-0.359
Rv1096ko	0.157	-0.455
Rv3684ko	0.128	-0.285
delta_otsA_trehalose	-0.96	1.032