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 Rv3398c/idsA1

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

	Rv3829c/-	Rv3398c/idsA1
Fe_supp_jason_reseq	-0.511	-0.677
low_pH_jason_reseq	0.555	0.694
NO_jason_reseq	-0.27	-0.11
B6_jason_reseq	-1.185	-2.06
MHCII_jason_reseq	-0.647	-2.841
Isoniazid02	-0.31	2.012
Rifampicin4	-0.523	-0.403
Ethambutol3	-0.102	1.411
Meropenem3	0.125	-0.255
Vancomycin16	-0.072	0.358
Rv2680_day32	0.917	0.041
H37Rv_KO_MarP	0.27	0.165
hypoxia_3wks	-0.419	0.359
hypoxia_6wks	-0.737	0.748
glycerol	0.336	-1.229
cholesterol	-0.012	-0.24
AJ	0.113	-1.287
Bibs02	-0.907	-0.303
Bibs02c	-0.161	-0.762
BL6	0.639	-0.208
BL6a	0.288	1.373
BXD01	0.542	1.355
BXD010	0.608	1.403
BXD011	0.34	1.139
BXD03	0.378	1.948
BXD04	0.534	1.608
BXD05	-0.033	1.701
BXD06	0.398	1.245
BXD07	0.361	1.105
BXD08	0.725	1.062
BXD09	0.225	1.379
CAST	-0.39	-0.302
CCcont	0.446	0.173
DS01	-0.332	0.339
DS02	0.254	0.876
DS04	-0.547	0.698
DS0c	0.071	-1.092
GP01	0.313	-0.164
GP02	0.762	0.722
GP0c	-0.438	-1.112
NOD	0.643	-0.07
NZO	-0.189	-0.062
PWK	-0.729	0.117
H37Rv_KO_CtpC	0.282	2.762
H37Rv_KO_CtpD	1.268	1.542
H37Rv_KO_Rv1272	0.713	2.022
H37Rv_KO_SugABC	0.807	2.161
H37Rv_KO_MbtN	0.201	0.0
Trans05	0.255	0.986
macrophage_unactivated	0.47	1.787
IL1	0.605	1.317
Rapamycin	0.218	1.406
Tcell	0.362	1.16
GMCSF	1.117	1.79
IFNab	0.726	1.427
IFNg	0.593	1.224
IFNg_GMCSF1	0.097	1.694
Rv1432_day32	0.387	0.85
Rv1565c_day32	0.441	1.591
secA2_input	0.313	0.0
delta_Rv3594	-0.381	-0.436
delta_Rv3717	-0.58	-1.081
delta_Rv3811	0.22	-0.998
delta_Rv0954	0.013	-0.585
PonA1	0.149	0.275
EccD1_KO	1.207	-0.678
EspI_KO	1.149	0.61
PE35_KO	1.254	0.624
PPE68_KO	1.318	1.328
glycerol2	-0.441	-1.327
lignocerate	-0.106	-1.122
oleate	-0.225	0.22
phosphatidylcholine	-0.409	-0.896
acetate	-0.447	-1.287
glucAc	-0.338	-1.381
Rv0950ko	-0.347	-0.06
Rv1096ko	0.205	1.04
Rv3684ko	-0.236	-0.4
delta_otsA_trehalose	-0.033	0.58