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 Rv0068/-:

update plot	correlation	link to info on gene
Rv3762c/-	(cc=0.4881)	info on Rv3762c/-
Rv0369c/-	(cc=0.472)	info on Rv0369c/-
Rv1496/-	(cc=0.4695)	info on Rv1496/-
Rv3108/-	(cc=0.4644)	info on Rv3108/-
Rv0844c/narL	(cc=0.4525)	info on Rv0844c/narL
Rv1517/-	(cc=0.4492)	info on Rv1517/-
Rv2151c/ftsQ	(cc=0.4403)	info on Rv2151c/ftsQ
Rv2758c/vapB21	(cc=0.4365)	info on Rv2758c/vapB21
Rv3398c/idsA1	(cc=0.434)	info on Rv3398c/idsA1
Rv3828c/-	(cc=0.432)	info on Rv3828c/-

Correlation of Rv0068/- with Rv0844c/narL

Normalized LFCs for Rv0068/-:
(description and provenance of datasets)

	Rv0068/-	Rv0844c/narL
Fe_supp_jason_reseq	1.209	-0.821
low_pH_jason_reseq	-0.487	-0.885
NO_jason_reseq	0.055	-0.798
B6_jason_reseq	-0.62	-1.434
MHCII_jason_reseq	-1.187	-1.717
Isoniazid02	0.067	-0.1
Rifampicin4	-0.309	0.208
Ethambutol3	-0.159	1.001
Meropenem3	-0.188	0.189
Vancomycin16	0.3	-0.342
Rv2680_day32	0.158	0.584
H37Rv_KO_MarP	0.93	0.126
hypoxia_3wks	0.179	-0.167
hypoxia_6wks	0.203	-0.334
glycerol	-0.205	1.508
cholesterol	0.727	0.542
AJ	0.101	0.509
Bibs02	-0.657	-0.719
Bibs02c	-0.796	-0.943
BL6	0.515	1.836
BL6a	0.0	1.204
BXD01	0.503	0.829
BXD010	0.304	0.842
BXD011	0.0	1.187
BXD03	0.949	1.108
BXD04	0.801	1.469
BXD05	-0.03	0.771
BXD06	0.348	0.426
BXD07	0.108	0.737
BXD08	0.26	1.32
BXD09	0.031	1.096
CAST	-0.369	0.282
CCcont	0.836	1.334
DS01	-0.337	0.224
DS02	-0.424	-0.191
DS04	-0.103	-0.17
DS0c	0.17	-0.358
GP01	0.117	1.085
GP02	-0.307	2.145
GP0c	-0.289	1.153
NOD	-0.19	-0.884
NZO	-0.461	0.337
PWK	0.578	-0.254
H37Rv_KO_CtpC	0.568	1.893
H37Rv_KO_CtpD	1.114	1.565
H37Rv_KO_Rv1272	0.267	2.107
H37Rv_KO_SugABC	1.087	1.083
H37Rv_KO_MbtN	0.72	1.304
Trans05	0.198	1.91
macrophage_unactivated	0.912	0.707
IL1	0.629	0.507
Rapamycin	0.451	0.319
Tcell	1.271	0.417
GMCSF	0.388	1.127
IFNab	0.444	0.753
IFNg	0.214	0.214
IFNg_GMCSF1	0.17	0.277
Rv1432_day32	0.519	0.675
Rv1565c_day32	0.25	0.215
secA2_input	0.111	-0.549
delta_Rv3594	-0.338	-0.912
delta_Rv3717	-0.703	-0.745
delta_Rv3811	-0.265	-1.019
delta_Rv0954	-0.651	-0.574
PonA1	0.639	-0.895
EccD1_KO	0.372	-0.03
EspI_KO	-0.436	0.876
PE35_KO	0.175	0.528
PPE68_KO	0.157	0.627
glycerol2	0.595	0.659
lignocerate	0.401	0.951
oleate	0.55	1.168
phosphatidylcholine	0.525	0.808
acetate	-0.219	-0.136
glucAc	-0.089	0.086
Rv0950ko	0.467	-0.075
Rv1096ko	0.926	0.169
Rv3684ko	-0.406	-0.429
delta_otsA_trehalose	-0.913	-1.055