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 Rv2962c/-:

update plot	correlation	link to info on gene
Rv1866/-	(cc=0.5811)	info on Rv1866/-
Rv3223c/sigH	(cc=0.5099)	info on Rv3223c/sigH
Rv3555c/-	(cc=0.4758)	info on Rv3555c/-
Rv1755c/plcD	(cc=0.4722)	info on Rv1755c/plcD
Rv1872c/lldD2	(cc=0.4636)	info on Rv1872c/lldD2
Rv1913/-	(cc=0.4592)	info on Rv1913/-
Rv3110/moaB1	(cc=0.4558)	info on Rv3110/moaB1
Rv1087/PE_PGRS21	(cc=0.4554)	info on Rv1087/PE_PGRS21
Rv2841c/nusA	(cc=0.4546)	info on Rv2841c/nusA
Rv1962A/vapB35	(cc=0.4544)	info on Rv1962A/vapB35

Correlation of Rv2962c/- with Rv1087/PE_PGRS21

Normalized LFCs for Rv2962c/-:
(description and provenance of datasets)

	Rv2962c/-	Rv1087/PE_PGRS21
Fe_supp_jason_reseq	0.655	-1.443
low_pH_jason_reseq	-0.823	-1.295
NO_jason_reseq	-0.142	-0.431
B6_jason_reseq	0.103	-0.404
MHCII_jason_reseq	0.459	-0.066
Isoniazid02	1.398	-1.653
Rifampicin4	-0.192	0.214
Ethambutol3	1.025	0.196
Meropenem3	-0.193	-0.639
Vancomycin16	-0.326	-0.865
Rv2680_day32	0.05	0.842
H37Rv_KO_MarP	0.586	0.162
hypoxia_3wks	0.239	-0.427
hypoxia_6wks	0.056	-0.727
glycerol	-0.984	1.262
cholesterol	1.795	0.519
AJ	0.35	1.155
Bibs02	-0.351	0.782
Bibs02c	-0.606	0.838
BL6	1.034	0.186
BL6a	0.026	0.133
BXD01	0.577	0.1
BXD010	0.626	0.2
BXD011	0.111	-0.79
BXD03	0.396	0.235
BXD04	0.461	-0.487
BXD05	0.203	-0.492
BXD06	0.331	0.014
BXD07	0.504	-0.43
BXD08	0.514	-0.431
BXD09	0.362	-0.437
CAST	-0.235	-0.215
CCcont	0.57	-0.173
DS01	0.248	-0.072
DS02	0.176	0.414
DS04	-0.013	0.777
DS0c	0.163	-0.11
GP01	0.759	1.227
GP02	1.286	1.357
GP0c	0.698	0.136
NOD	0.732	0.944
NZO	0.026	-0.144
PWK	0.148	0.358
H37Rv_KO_CtpC	0.459	-0.461
H37Rv_KO_CtpD	1.486	1.767
H37Rv_KO_Rv1272	0.532	0.546
H37Rv_KO_SugABC	0.535	0.362
H37Rv_KO_MbtN	1.092	0.196
Trans05	0.78	0.323
macrophage_unactivated	-0.18	-0.919
IL1	-0.878	-2.441
Rapamycin	-1.004	-2.734
Tcell	-0.583	-1.825
GMCSF	-1.075	-0.935
IFNab	-0.626	-2.839
IFNg	-0.831	-1.497
IFNg_GMCSF1	-0.65	-2.061
Rv1432_day32	0.159	0.568
Rv1565c_day32	0.047	-1.084
secA2_input	-0.576	-0.551
delta_Rv3594	0.113	0.095
delta_Rv3717	-0.036	-0.109
delta_Rv3811	0.11	-0.254
delta_Rv0954	0.554	-1.503
PonA1	-0.022	-0.04
EccD1_KO	0.832	-0.023
EspI_KO	-0.086	-0.06
PE35_KO	0.615	0.219
PPE68_KO	0.563	-0.138
glycerol2	0.397	0.933
lignocerate	0.189	1.382
oleate	0.238	0.366
phosphatidylcholine	0.321	0.933
acetate	0.268	1.235
glucAc	0.346	1.491
Rv0950ko	-0.169	0.289
Rv1096ko	0.229	0.878
Rv3684ko	0.416	0.57
delta_otsA_trehalose	1.239	1.004