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 Rv3829c/-:

update plot	correlation	link to info on gene
Rv3108/-	(cc=0.5668)	info on Rv3108/-
Rv1946c/lppG	(cc=0.545)	info on Rv1946c/lppG
Rv3398c/idsA1	(cc=0.5255)	info on Rv3398c/idsA1
Rv0844c/narL	(cc=0.5092)	info on Rv0844c/narL
Rv2452c/-	(cc=0.5074)	info on Rv2452c/-
Rv2807/-	(cc=0.4958)	info on Rv2807/-
Rv2428/ahpC	(cc=0.4923)	info on Rv2428/ahpC
Rv2070c/cobK	(cc=0.4855)	info on Rv2070c/cobK
Rv3166c/-	(cc=0.4773)	info on Rv3166c/-
Rv1962A/vapB35	(cc=0.4712)	info on Rv1962A/vapB35

Correlation of Rv3829c/- with Rv2070c/cobK

Normalized LFCs for Rv3829c/-:
(description and provenance of datasets)

	Rv3829c/-	Rv2070c/cobK
Fe_supp_jason_reseq	-0.511	-1.768
low_pH_jason_reseq	0.555	0.301
NO_jason_reseq	-0.27	0.034
B6_jason_reseq	-1.185	-1.547
MHCII_jason_reseq	-0.647	-1.779
Isoniazid02	-0.31	-0.383
Rifampicin4	-0.523	0.065
Ethambutol3	-0.102	2.239
Meropenem3	0.125	-0.576
Vancomycin16	-0.072	-0.13
Rv2680_day32	0.917	0.443
H37Rv_KO_MarP	0.27	0.594
hypoxia_3wks	-0.419	0.319
hypoxia_6wks	-0.737	-0.269
glycerol	0.336	0.573
cholesterol	-0.012	-0.315
AJ	0.113	0.734
Bibs02	-0.907	-1.874
Bibs02c	-0.161	-1.426
BL6	0.639	0.972
BL6a	0.288	-0.54
BXD01	0.542	-1.001
BXD010	0.608	-0.722
BXD011	0.34	-0.582
BXD03	0.378	0.573
BXD04	0.534	-0.113
BXD05	-0.033	0.93
BXD06	0.398	-0.219
BXD07	0.361	-0.416
BXD08	0.725	-0.09
BXD09	0.225	-0.031
CAST	-0.39	0.577
CCcont	0.446	0.064
DS01	-0.332	0.592
DS02	0.254	0.268
DS04	-0.547	0.122
DS0c	0.071	1.548
GP01	0.313	0.247
GP02	0.762	1.263
GP0c	-0.438	0.659
NOD	0.643	0.361
NZO	-0.189	0.321
PWK	-0.729	-0.479
H37Rv_KO_CtpC	0.282	0.0
H37Rv_KO_CtpD	1.268	1.398
H37Rv_KO_Rv1272	0.713	0.975
H37Rv_KO_SugABC	0.807	-1.204
H37Rv_KO_MbtN	0.201	-0.119
Trans05	0.255	0.135
macrophage_unactivated	0.47	-0.189
IL1	0.605	-0.558
Rapamycin	0.218	0.264
Tcell	0.362	-0.196
GMCSF	1.117	0.895
IFNab	0.726	1.363
IFNg	0.593	0.649
IFNg_GMCSF1	0.097	-0.591
Rv1432_day32	0.387	-0.591
Rv1565c_day32	0.441	-0.948
secA2_input	0.313	0.678
delta_Rv3594	-0.381	-0.136
delta_Rv3717	-0.58	-1.078
delta_Rv3811	0.22	0.031
delta_Rv0954	0.013	-0.205
PonA1	0.149	0.416
EccD1_KO	1.207	0.362
EspI_KO	1.149	0.961
PE35_KO	1.254	1.07
PPE68_KO	1.318	2.109
glycerol2	-0.441	-0.604
lignocerate	-0.106	-0.179
oleate	-0.225	-0.611
phosphatidylcholine	-0.409	-0.206
acetate	-0.447	-0.078
glucAc	-0.338	0.556
Rv0950ko	-0.347	-1.432
Rv1096ko	0.205	0.296
Rv3684ko	-0.236	-0.812
delta_otsA_trehalose	-0.033	-0.254